Agbl4 (AGBL carboxypeptidase 4) - Rat Genome Database

Name: Agbl4
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

	Submit Data \| Help \| Video Tutorials \| News \| Publications \| Download \| REST API \| Citing RGD \| Contact
	Search RGD Grant Resources Citing RGD About Us Contact Us Genes Projects (beta) QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) (beta) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer) Overgo Probe Designer Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease COVID-19 Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease Find Models new Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes GERRC (Gene Editing Rat Resource Center) Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive Pathways Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Poster Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
	Advanced Search (OLGA)

Gene: Agbl4 (AGBL carboxypeptidase 4) Rattus norvegicus

Analyze

Symbol:

Agbl4 (Ensembl: Bend5)

Name:

AGBL carboxypeptidase 4 (Ensembl:BEN domain containing 5)

RGD ID:

6493177

Description:

Predicted to enable metallocarboxypeptidase activity and tubulin binding activity. Predicted to be involved in defense response to virus. Predicted to act upstream of or within several processes, including axonal transport of mitochondrion; positive regulation of ubiquitin-dependent protein catabolic process; and regulation of blastocyst development. Predicted to be located in Golgi apparatus; cytosol; and microtubule organizing center. Orthologous to human AGBL4 (AGBL carboxypeptidase 4); INTERACTS WITH 17beta-estradiol; acrylamide; bisphenol A.

Type:

protein-coding

RefSeq Status:

VALIDATED

Previously known as:

ATP/GTP binding protein-like 4; Ccp6l1; cytosolic carboxypeptidase 6; cytosolic carboxypeptidase 6-like; cytosolic carboxypeptidase 6-like 1; LOC100911395; RGD1559973; RGD1564161

RGD Orthologs

Alliance Genes

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	AGBL4 (AGBL carboxypeptidase 4)	HGNC	EggNOG, Ensembl, HomoloGene, OrthoDB, OrthoMCL, Panther
Mus musculus (house mouse):	Agbl4 (ATP/GTP binding protein-like 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Agbl4 (AGBL carboxypeptidase 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	LOC100967527 (AGBL carboxypeptidase 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	AGBL4 (AGBL carboxypeptidase 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	AGBL4 (AGBL carboxypeptidase 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	AGBL4 (AGBL carboxypeptidase 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Agbl4 (AGBL carboxypeptidase 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Other homologs ²
Homo sapiens (human):	BEND5 (BEN domain containing 5)	HGNC	EggNOG, Ensembl, Inparanoid, OrthoDB, Treefam
Alliance orthologs ³
Homo sapiens (human):	AGBL4 (AGBL carboxypeptidase 4)	Alliance	DIOPT (Ensembl Compara\|HGNC\|OrthoFinder\|OrthoInspector\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Agbl4 (ATP/GTP binding protein-like 4)	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|OrthoInspector\|PhylomeDB\|SonicParanoid)
Drosophila melanogaster (fruit fly):	CG31019	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|OrthoInspector\|PhylomeDB\|SonicParanoid)
Caenorhabditis elegans (roundworm):	ccpp-6	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|PhylomeDB)

Allele / Splice:

Agbl4^{Tn(sb-T2/Bart3)2.337Mcwi}

Genetic Models:

F344-Agbl4^{Tn(sb-T2/Bart3)2.337Mcwi}

Latest Assembly:

mRatBN7.2 - mRatBN7.2 Assembly

NCBI Annotation Information:

Annotation category: suggests misassembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	5	125,254,963 - 126,534,367 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	5	125,254,956 - 126,534,367 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	5	127,872,423 - 129,188,341 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	5	129,595,479 - 130,911,422 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	5	129,646,785 - 130,939,624 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	5	130,742,297 - 131,656,581 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	5	130,286,393 - 130,305,884 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0 Ensembl	5	131,380,297 - 131,455,211 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	5	134,582,789 - 135,484,937 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
Celera	5	124,499,912 - 125,235,495 (+)	NCBI		Celera
Cytogenetic Map	5	q35	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

atrial fibrillation (ISO)

Developmental Disease (ISO)

genetic disease (ISO)

prostate cancer (ISO)

substance-related disorder (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,2-dichloroethane (ISO)

17beta-estradiol (EXP)

3,4-methylenedioxymethamphetamine (ISO)

acrylamide (EXP)

aflatoxin B1 (ISO)

Aflatoxin B2 alpha (ISO)

benzo[a]pyrene (ISO)

benzo[e]pyrene (ISO)

bisphenol A (EXP,ISO)

cyclosporin A (ISO)

folic acid (ISO)

fulvestrant (ISO)

hydroquinone O-beta-D-glucopyranoside (ISO)

kojic acid (ISO)

lead(0) (ISO)

methapyrilene (ISO)

resveratrol (ISO)

silicon dioxide (ISO)

testosterone (EXP)

valproic acid (EXP,ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

anterograde axonal transport of mitochondrion (ISO)

axonal transport (ISO)

biological_process (ND)

central nervous system neuron development (ISO)

defense response to virus (ISO)

negative regulation of cell population proliferation (ISO)

negative regulation of DNA-templated transcription (IBA)

positive regulation of ubiquitin-dependent protein catabolic process (ISO)

proteolysis (IEA)

regulation of blastocyst development (ISO)

retrograde axonal transport of mitochondrion (ISO)

Cellular Component

axon (ISO)

axon cytoplasm (IEA,ISO)

centriole (ISO)

ciliary basal body (ISO)

cytosol (ISO)

Golgi apparatus (ISO)

Molecular Function

DNA binding (IEA)

metallocarboxypeptidase activity (ISO)

protein binding (ISO)

tubulin binding (ISO)

zinc ion binding (IEA)

References

References - curated

#	Reference Title	Reference Citation
1.	Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2.	ClinVar Automated Import and Annotation Pipeline	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
4.	Comprehensive gene review and curation	RGD comprehensive gene curation

Additional References at PubMed

PMID:15632090	PMID:17244818	PMID:21074048	PMID:23085998	PMID:25103237	PMID:26829768	PMID:29593216	PMID:30420556

Genomics

Comparative Map Data

Agbl4
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	5	125,254,963 - 126,534,367 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	5	125,254,956 - 126,534,367 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	5	127,872,423 - 129,188,341 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	5	129,595,479 - 130,911,422 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	5	129,646,785 - 130,939,624 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	5	130,742,297 - 131,656,581 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	5	130,286,393 - 130,305,884 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0 Ensembl	5	131,380,297 - 131,455,211 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	5	134,582,789 - 135,484,937 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
Celera	5	124,499,912 - 125,235,495 (+)	NCBI		Celera
Cytogenetic Map	5	q35	NCBI

AGBL4
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	1	48,522,511 - 50,023,954 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	1	48,532,854 - 50,023,954 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	1	48,998,526 - 50,489,626 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	1	48,825,047 - 49,283,906 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Celera	1	47,284,584 - 48,775,481 (-)	NCBI		Celera
Cytogenetic Map	1	p33	NCBI
HuRef	1	47,116,496 - 48,608,159 (-)	NCBI		HuRef
CHM1_1	1	49,115,521 - 50,606,664 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	1	48,393,346 - 49,902,907 (-)	NCBI		T2T-CHM13v2.0

Agbl4
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	4	110,254,823 - 111,521,521 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	4	110,254,858 - 111,521,521 (+)	Ensembl		GRCm39 Ensembl
GRCm38	4	110,397,649 - 111,664,324 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	4	110,397,661 - 111,664,324 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	4	110,070,396 - 111,330,115 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	4	109,895,630 - 110,467,081 (+)	NCBI		MGSCv36	mm8
Celera	4	108,735,732 - 109,985,425 (+)	NCBI		Celera
Cytogenetic Map	4	C7- D1	NCBI
cM Map	4	51.43	NCBI

Agbl4
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955464	8,880,455 - 10,193,907 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955464	8,847,401 - 10,195,184 (+)	NCBI	ChiLan1.0	ChiLan1.0

LOC100967527
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1	1	175,987,924 - 177,445,646 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	1	47,807,888 - 49,264,213 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	1	49,316,524 - 50,770,899 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	1	49,511,379 - 49,560,314 (-)	Ensembl	panpan1.1		panPan2
PanPan1.1 Ensembl	1	49,317,846 - 50,770,741 (-)	Ensembl	panpan1.1		panPan2

AGBL4
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	15	11,056,440 - 12,435,428 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	15	11,056,447 - 12,435,448 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	15	11,208,547 - 12,585,710 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	15	11,194,679 - 12,580,146 (+)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	15	11,194,739 - 12,580,160 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	15	10,992,923 - 12,384,476 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	15	11,081,584 - 12,450,907 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	15	11,098,218 - 12,520,528 (+)	NCBI		UU_Cfam_GSD_1.0

AGBL4
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1	6	161,953,495 - 163,216,282 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	6	150,597,743 - 150,615,919 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

AGBL4
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	20	82,893,087 - 84,293,578 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
Vero_WHO_p1.0	NW_023666033	32,830,718 - 34,295,008 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Agbl4
(Heterocephalus glaber - naked mole-rat)

Naked Mole-Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla_female_1.0 Ensembl	NW_004624859	3,061,342 - 4,418,967 (+)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624859	3,061,185 - 4,420,220 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Agbl4
4991 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	102
Count of miRNA genes:	80
Interacting mature miRNAs:	86
Transcripts:	ENSRNOT00000010548, ENSRNOT00000044795
Prediction methods:	Microtar, Miranda, Rnahybrid, Targetscan
Result types:	miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.

QTLs in Region (mRatBN7.2)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
70212	Niddm25	Non-insulin dependent diabetes mellitus QTL 25	3.54		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	5	1	131345958	Rat
1576314	Eutr1	Estrogen induced uterine response QTL 1			uterus integrity trait (VT:0010575)	pyometritis severity score (CMO:0002009)	5	2138965	166875058	Rat
2290448	Scl54	Serum cholesterol level QTL 54	2.93		blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	5	31663789	131345958	Rat
1641912	Alcrsp18	Alcohol response QTL 18			response to alcohol trait (VT:0010489)	duration of loss of righting reflex (CMO:0002289)	5	35189153	141643988	Rat
1549845	Scl44	Serum cholesterol level QTL 44	6		blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	5	40128307	148607290	Rat
1331801	Rf33	Renal function QTL 33	4.149		kidney blood vessel physiology trait (VT:0100012)	absolute change in renal vascular resistance (CMO:0001900)	5	43726656	129132602	Rat
1578766	Tcas11	Tongue tumor susceptibility QTL 11	4.12		tongue integrity trait (VT:0010553)	number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)	5	46711509	161317411	Rat
1576312	Emca8	Estrogen-induced mammary cancer QTL 8	4.1		mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	5	50328551	141643988	Rat
70189	Mcs5	Mammary carcinoma susceptibility QTL 5	10.51		mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	5	55805606	132207589	Rat
1358895	Bp254	Blood pressure QTL 254	3.6	0.0003	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	5	58829236	128034027	Rat
61426	Scl2	Serum cholesterol level QTL 2	7.3	0.001	blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	5	59793399	143070159	Rat
61393	Bp7	Blood pressure QTL 7	4.5	0.0001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	5	60293434	161481680	Rat
1354598	Srn6	Serum renin concentration QTL 6	3.8		blood renin amount (VT:0003349)	plasma renin activity level (CMO:0000116)	5	69540295	151018848	Rat
1302790	Scl20	Serum cholesterol level QTL 20	6.4	0.0001	blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	5	82394392	166664054	Rat
1298086	Bp156	Blood pressure QTL 156			arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	5	84132602	129132602	Rat
7411601	Foco12	Food consumption QTL 12	19.7	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	5	87468046	132468046	Rat
7411564	Bw135	Body weight QTL 135		0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	5	87468046	132468046	Rat
7411582	Foco3	Food consumption QTL 3	7.5	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	5	87468046	132468046	Rat
6903316	Bw113	Body weight QTL 113	2	0.0103	body mass (VT:0001259)	body weight (CMO:0000012)	5	87765973	132765973	Rat
1358889	Bp261	Blood pressure QTL 261	2.86		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	5	90067849	128034027	Rat
1358909	Kidm25	Kidney mass QTL 25	1.87		kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	5	90067849	128034027	Rat
631527	Tls1	T-lymphoma susceptibility QTL 1	0	0.001	thymus integrity trait (VT:0010555)	post-insult time to onset of T-cell lymphoma (CMO:0001907)	5	90450144	135450144	Rat
61452	Ciaa5	CIA Autoantibody QTL 5	3.5		blood autoantibody amount (VT:0003725)	calculated serum anti-rat type 2 collagen autoantibody titer (CMO:0001281)	5	94858972	143070159	Rat
1331796	Thshl2	Thyroid stimulating hormone level QTL 2	2.3		blood thyroid-stimulating hormone amount (VT:0005119)	serum thyroid stimulating hormone level (CMO:0001248)	5	97059760	147465714	Rat
2317753	Glom24	Glomerulus QTL 24	3.1		kidney glomerulus integrity trait (VT:0010546)	kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)	5	97570330	136479578	Rat
1358187	Emca1	Estrogen-induced mammary cancer QTL 1	4.4		mammary gland integrity trait (VT:0010552)	post-insult time to mammary tumor formation (CMO:0000345)	5	99216724	148607142	Rat
1578673	Bmd13	Bone mineral density QTL 13	4.9		femur mineral mass (VT:0010011)	trabecular volumetric bone mineral density (CMO:0001729)	5	103689353	148689353	Rat
2317056	Wbc3	White blood cell count QTL 3	2.51	0.01	leukocyte quantity (VT:0000217)	white blood cell count (CMO:0000027)	5	105999803	150999803	Rat
7207488	Bss110	Bone structure and strength QTL 1	8.4		femur strength trait (VT:0010010)	femur stiffness (CMO:0001674)	5	106906205	151906205	Rat
7207491	Bss112	Bone structure and strength QTL 112	7		femur morphology trait (VT:0000559)	femur midshaft cortical cross-sectional area (CMO:0001663)	5	106906205	151906205	Rat
7207481	Bss106	Bone structure and strength QTL 106	7.9		femur strength trait (VT:0010010)	femur ultimate force (CMO:0001675)	5	106906205	151906205	Rat
7207486	Bss109	Bone structure and strength QTL 109			femur strength trait (VT:0010010)	femur total energy absorbed before break (CMO:0001677)	5	106906205	151906205	Rat
1549838	Bss4	Bone structure and strength QTL 4	9.2		femur strength trait (VT:0010010)	femur midshaft polar moment of inertia (CMO:0001669)	5	106906205	151906205	Rat
1298089	Scl14	Serum cholesterol level QTL 14	5.8	0.0004	blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	5	108845856	153845856	Rat
1598847	Cm62	Cardiac mass QTL 62	3.4		heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	5	108845856	153845856	Rat
8657050	Bw146	Body weight QTL 146	19.84	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	5	108938288	153938288	Rat
8694441	Bw169	Body weight QTL 169	17.61	0.001	retroperitoneal fat pad mass (VT:0010430)	retroperitoneal fat pad weight to body weight ratio (CMO:0000635)	5	111416838	156416838	Rat
8694198	Abfw3	Abdominal fat weight QTL 3	16.13	0.001	visceral adipose mass (VT:0010063)	abdominal fat pad weight to body weight ratio (CMO:0000095)	5	111416838	156416838	Rat
8694389	Bw160	Body weight QTL 160	6.17	0.001	body lean mass (VT:0010483)	lean tissue morphological measurement (CMO:0002184)	5	111416838	156416838	Rat
8552960	Pigfal15	Plasma insulin-like growth factor 1 level QTL 15			blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	5	111416838	156416838	Rat
1582230	Bw78	Body weight QTL 78	3.2	0.0016	epididymal fat pad mass (VT:0010421)	epididymal fat pad weight to body weight ratio (CMO:0000658)	5	119085612	128034027	Rat
1581510	Cm54	Cardiac mass QTL 54	3.4	0.05	heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	5	120740824	143608494	Rat
2293642	Bss37	Bone structure and strength QTL 37	4.64	0.0001	femur strength trait (VT:0010010)	femur ultimate force (CMO:0001675)	5	120740824	151018848	Rat
1641920	Colcs1	Colorectal carcinoma susceptibility QTL 1	2.99	0.0055	intestine integrity trait (VT:0010554)	benign colorectal tumor surface area measurement (CMO:0001799)	5	121846814	166846814	Rat
7394710	Emca12	Estrogen-induced mammary cancer QTL 12			mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	5	124160767	133749643	Rat
10053720	Scort26	Serum corticosterone level QTL 26	2.06	0.0147	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	5	124965598	166875058	Rat
1300122	Wbc1	White blood cell count QTL 1	2.75		leukocyte quantity (VT:0000217)	total white blood cell count (CMO:0000365)	5	125392826	139989768	Rat
724525	Bp147	Blood pressure QTL 147	4.3	0.0001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	5	126424772	166875058	Rat

Markers in Region

RH140985

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	X	18,631,101 - 18,631,296 (-)	MAPPER	mRatBN7.2
Rnor_6.0	5	131,609,239 - 131,609,433	NCBI	Rnor6.0
Rnor_5.0	5	135,433,241 - 135,433,435	UniSTS	Rnor5.0
RGSC_v3.4	X	38,809,407 - 38,809,601	UniSTS	RGSC3.4
Celera	X	19,625,001 - 19,625,191	UniSTS
Celera	X	18,896,876 - 18,897,070	UniSTS

AU049545

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	5	125,864,606 - 125,864,762 (+)	MAPPER	mRatBN7.2
Rnor_6.0	5	130,827,590 - 130,827,745	NCBI	Rnor6.0
Rnor_5.0	5	134,654,208 - 134,654,363	UniSTS	Rnor5.0
RGSC_v3.4	5	132,520,000 - 132,520,155	UniSTS	RGSC3.4
Celera	5	124,585,108 - 124,585,273	UniSTS

BE110236

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	5	126,206,402 - 126,206,554 (+)	MAPPER	mRatBN7.2
Rnor_6.0	5	131,173,147 - 131,173,298	NCBI	Rnor6.0
Rnor_5.0	5	135,000,798 - 135,000,949	UniSTS	Rnor5.0
RGSC_v3.4	5	132,869,270 - 132,869,421	UniSTS	RGSC3.4
Celera	5	124,914,680 - 124,914,831	UniSTS
RH 3.4 Map	5	821.5	UniSTS
Cytogenetic Map	5	q35	UniSTS

BF398772

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	5	126,296,801 - 126,296,921 (+)	MAPPER	mRatBN7.2
Rnor_6.0	5	131,263,281 - 131,263,400	NCBI	Rnor6.0
Rnor_5.0	5	135,090,868 - 135,090,987	UniSTS	Rnor5.0
RGSC_v3.4	5	132,961,491 - 132,961,610	UniSTS	RGSC3.4
Celera	5	125,004,553 - 125,004,672	UniSTS
RH 3.4 Map	9	55.0	UniSTS
Cytogenetic Map	5	q35	UniSTS

Bcl2l2

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	15	28,358,046 - 28,358,825 (+)	MAPPER	mRatBN7.2
mRatBN7.2	X	18,645,579 - 18,645,758 (-)	MAPPER	mRatBN7.2
Rnor_6.0	5	131,563,338 - 131,563,516	NCBI	Rnor6.0
Rnor_6.0	15	33,545,587 - 33,546,365	NCBI	Rnor6.0
Rnor_5.0	15	37,432,533 - 37,433,311	UniSTS	Rnor5.0
Rnor_5.0	5	135,387,340 - 135,387,518	UniSTS	Rnor5.0
RGSC_v3.4	15	32,984,440 - 32,985,218	UniSTS	RGSC3.4
RGSC_v3.4	X	38,831,469 - 38,831,647	UniSTS	RGSC3.4
Celera	X	18,918,630 - 18,918,808	UniSTS
Celera	15	27,935,856 - 27,936,634	UniSTS
Cytogenetic Map	15	p13	UniSTS
Cytogenetic Map	X	q14	UniSTS

AU049333

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	5	126,296,934 - 126,297,064 (+)	MAPPER	mRatBN7.2
Rnor_6.0	5	131,263,414 - 131,263,543	NCBI	Rnor6.0
Rnor_5.0	5	135,091,001 - 135,091,130	UniSTS	Rnor5.0
RGSC_v3.4	5	132,961,624 - 132,961,753	UniSTS	RGSC3.4
Celera	5	125,004,686 - 125,004,869	UniSTS
Cytogenetic Map	5	q35	UniSTS

AU049509

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	5	125,981,263 - 125,981,470 (+)	MAPPER	mRatBN7.2
Rnor_6.0	5	130,943,864 - 130,944,070	NCBI	Rnor6.0
Rnor_5.0	5	134,769,790 - 134,769,996	UniSTS	Rnor5.0
RGSC_v3.4	5	132,638,510 - 132,638,716	UniSTS	RGSC3.4
Celera	5	124,697,774 - 124,697,980	UniSTS

AU049910

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	5	126,386,545 - 126,386,738 (+)	MAPPER	mRatBN7.2
Rnor_6.0	5	131,361,632 - 131,361,824	NCBI	Rnor6.0
Rnor_5.0	5	135,188,314 - 135,188,506	UniSTS	Rnor5.0
RGSC_v3.4	5	133,051,793 - 133,051,985	UniSTS	RGSC3.4
Celera	5	125,094,449 - 125,094,641	UniSTS

C1orf165

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	5	126,329,451 - 126,329,568 (+)	MAPPER	mRatBN7.2
Rnor_6.0	5	131,305,125 - 131,305,241	NCBI	Rnor6.0
Rnor_5.0	5	135,131,744 - 135,131,860	UniSTS	Rnor5.0
RGSC_v3.4	5	132,994,176 - 132,994,292	UniSTS	RGSC3.4
Celera	5	125,037,606 - 125,037,722	UniSTS
Cytogenetic Map	5	q35	UniSTS

Genetic Models

This gene Agbl4 is modified in the following models/strains

F344-Agbl4^{Tn(sb-T2/Bart3)2.337Mcwi}

Expression

RNA-SEQ Expression

High: > 1000 TPM value Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM Below Cutoff: < 0.5 TPM

	alimentary part of gastrointestinal system	circulatory system	endocrine system	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system	appendage
High
Medium	1		3		3				12	2	19	9
Low	2	11	24	11	16	11	8	10	104	8	21	6	8
Below cutoff	1	30	37	29	8	29	3	5	24	38	31	6	3

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001100981	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	NM_001350232	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_008763955	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017602903	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AY387075	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH474008	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FM128597	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000162	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSRNOT00000010548 ⟹ ENSRNOP00000010548

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	5	125,254,956 - 126,528,370 (+)	Ensembl
Rnor_6.0 Ensembl	5	131,380,297 - 131,455,211 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000010628 ⟹ ENSRNOP00000010628

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	5	126,290,648 - 126,336,662 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000044795 ⟹ ENSRNOP00000047761

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	5	125,341,986 - 125,361,474 (+)	Ensembl
Rnor_6.0 Ensembl	5	130,286,393 - 130,305,884 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000097800 ⟹ ENSRNOP00000088189

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	5	125,254,956 - 125,780,308 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000110652 ⟹ ENSRNOP00000095635

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	5	125,254,956 - 126,437,854 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000111569 ⟹ ENSRNOP00000089080

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	5	125,255,006 - 125,498,273 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000112364 ⟹ ENSRNOP00000096707

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	5	125,254,956 - 126,336,662 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000115129 ⟹ ENSRNOP00000083032

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	5	126,326,704 - 126,336,662 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000117438 ⟹ ENSRNOP00000097591

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	5	125,254,956 - 126,534,367 (+)	Ensembl

RefSeq Acc Id:

NM_001350232 ⟹ NP_001337161

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	5	125,254,963 - 126,534,367 (+)	NCBI

Protein Sequences


Protein RefSeqs	NP_001337161	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAQ91045	(Get FASTA)	NCBI Sequence Viewer
	EDL90344	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:

ENSRNOP00000047761 ⟸ ENSRNOT00000044795

RefSeq Acc Id:

ENSRNOP00000010548 ⟸ ENSRNOT00000010548

RefSeq Acc Id:	NP_001337161 ⟸ NM_001350232
- UniProtKB:	A0A8I6AWJ7 (UniProtKB/TrEMBL)

RefSeq Acc Id:

ENSRNOP00000083032 ⟸ ENSRNOT00000115129

RefSeq Acc Id:

ENSRNOP00000095635 ⟸ ENSRNOT00000110652

RefSeq Acc Id:

ENSRNOP00000097591 ⟸ ENSRNOT00000117438

RefSeq Acc Id:

ENSRNOP00000010628 ⟸ ENSRNOT00000010628

RefSeq Acc Id:

ENSRNOP00000088189 ⟸ ENSRNOT00000097800

RefSeq Acc Id:

ENSRNOP00000096707 ⟸ ENSRNOT00000112364

RefSeq Acc Id:

ENSRNOP00000089080 ⟸ ENSRNOT00000111569

Protein Domains

BEN Cytosolic carboxypeptidase N-terminal DUF1725 Peptidase M14 carboxypeptidase A

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-F1LYK5-F1-model_v2	AlphaFold	F1LYK5	1-227	view protein structure

Transcriptome

eQTL		View at Phenogen
WGCNA		View at Phenogen
Tissue/Strain Expression		View at Phenogen

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:6493177	AgrOrtholog
BioCyc Gene	G2FUF-40340	BioCyc
Ensembl Genes	ENSRNOG00000008011	Ensembl
	ENSRNOG00000008025	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
	ENSRNOG00000033097	Ensembl
Ensembl Protein	ENSRNOP00000010548.8	UniProtKB/TrEMBL
	ENSRNOP00000047761.1	UniProtKB/TrEMBL
	ENSRNOP00000083032.1	UniProtKB/TrEMBL
	ENSRNOP00000088189.1	UniProtKB/TrEMBL
	ENSRNOP00000089080.1	UniProtKB/TrEMBL
	ENSRNOP00000095635.1	UniProtKB/TrEMBL
	ENSRNOP00000096707.1	UniProtKB/TrEMBL
	ENSRNOP00000097591	ENTREZGENE
	ENSRNOP00000097591.1	UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000010548.8	UniProtKB/TrEMBL
	ENSRNOT00000044795.2	UniProtKB/TrEMBL
	ENSRNOT00000097800.1	UniProtKB/TrEMBL
	ENSRNOT00000110652.1	UniProtKB/TrEMBL
	ENSRNOT00000111569.1	UniProtKB/TrEMBL
	ENSRNOT00000112364.1	UniProtKB/TrEMBL
	ENSRNOT00000115129.1	UniProtKB/TrEMBL
	ENSRNOT00000117438	ENTREZGENE
	ENSRNOT00000117438.1	UniProtKB/TrEMBL
Gene3D-CATH	2.60.40.3120	UniProtKB/TrEMBL
	BEN domain	UniProtKB/TrEMBL
	Zn peptidases	UniProtKB/TrEMBL
InterPro	BEN_domain	UniProtKB/TrEMBL
	BEND5	UniProtKB/TrEMBL
	DUF1725	UniProtKB/TrEMBL
	Pepdidase_M14_N	UniProtKB/TrEMBL
	Peptidase_M14	UniProtKB/TrEMBL
NCBI Gene	LOC100911395	ENTREZGENE
PANTHER	BEN DOMAIN-CONTAINING PROTEIN 5	UniProtKB/TrEMBL
	CYTOSOLIC CARBOXYPEPTIDASE	UniProtKB/TrEMBL
	CYTOSOLIC CARBOXYPEPTIDASE 6	UniProtKB/TrEMBL
	PTHR14628	UniProtKB/TrEMBL
Pfam	BEN	UniProtKB/TrEMBL
	DUF1725	UniProtKB/TrEMBL
	Pepdidase_M14_N	UniProtKB/TrEMBL
	Peptidase_M14	UniProtKB/TrEMBL
PhenoGen	Agbl4	PhenoGen
PROSITE	BEN	UniProtKB/TrEMBL
SMART	BEN	UniProtKB/TrEMBL
	Zn_pept	UniProtKB/TrEMBL
Superfamily-SCOP	Zn-dependent exopeptidases	UniProtKB/TrEMBL
UniProt	A0A8I5ZW44_RAT	UniProtKB/TrEMBL
	A0A8I6A9E9_RAT	UniProtKB/TrEMBL
	A0A8I6A9H8_RAT	UniProtKB/TrEMBL
	A0A8I6AP52_RAT	UniProtKB/TrEMBL
	A0A8I6AWJ7	ENTREZGENE, UniProtKB/TrEMBL
	A0A8I6GM74_RAT	UniProtKB/TrEMBL
	F1LYK5_RAT	UniProtKB/TrEMBL
	Q6TUF5_RAT	UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2019-05-17	Agbl4	ATP/GTP binding protein-like 4	Ccp6l1	cytosolic carboxypeptidase 6-like 1	Data Merged	737654	PROVISIONAL
2015-06-19	Ccp6l1	cytosolic carboxypeptidase 6-like 1	Agbl4	ATP/GTP binding protein-like 4	Name and Symbol changed	629549	APPROVED
2015-06-19	Agbl4	ATP/GTP binding protein-like 4	LOC100911395	cytosolic carboxypeptidase 6-like	Name and Symbol changed	629549	APPROVED
2012-07-05	LOC100911395	cytosolic carboxypeptidase 6-like			Symbol and Name status set to provisional	70820	PROVISIONAL
2008-10-16	Agbl4	ATP/GTP binding protein-like 4	RGD1564161	similar to novel protein	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-04-30	RGD1564161	similar to novel protein	RGD1564161_predicted	similar to novel protein (predicted)	'predicted' is removed	2292626	APPROVED
2008-01-09	RGD1564161_predicted	similar to novel protein (predicted)	RGD1559973_predicted	similar to CG31019-PA (predicted)	Data Merged	1643240	APPROVED
2006-03-07	RGD1564161_predicted	similar to novel protein (predicted)	LOC362562	similar to novel protein	Symbol and Name status set to approved	1299863	APPROVED
2006-03-07	RGD1559973_predicted	similar to CG31019-PA (predicted)	LOC362561	similar to CG31019-PA	Symbol and Name status set to approved	1299863	APPROVED
2006-02-09	LOC362562	similar to novel protein			Symbol and Name status set to provisional	70820	PROVISIONAL
2006-02-09	LOC362561	similar to CG31019-PA			Symbol and Name status set to provisional	70820	PROVISIONAL

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

Send us a Message

Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD