LOC498555 (similar to 60S acidic ribosomal protein P2)

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Gene: LOC498555 (similar to 60S acidic ribosomal protein P2) Rattus norvegicus

Analyze

No known orthologs.

Symbol:

LOC498555

Name:

similar to 60S acidic ribosomal protein P2

RGD ID:

1590791

Description:

Predicted to be a structural constituent of ribosome. Predicted to be involved in cytoplasmic translational elongation. Predicted to be part of cytosolic large ribosomal subunit. Orthologous to human RPLP2 (ribosomal protein lateral stalk subunit P2).

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

60S acidic ribosomal protein P2-like

RGD Orthologs

Alliance Genes

More Info

homologs ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Other homologs ²				less info ...
Homo sapiens (human):	RPLP2 (ribosomal protein lateral stalk subunit P2)	HGNC	Ensembl, OrthoDB, Panther, Treefam
Alliance orthologs ³
Homo sapiens (human):	RPLP2 (ribosomal protein lateral stalk subunit P2)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Rplp2 (ribosomal protein, large P2)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Rplp2-ps1 (ribosomal protein, large P2, pseudogene 1)	Alliance	DIOPT (Ensembl Compara\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)
Danio rerio (zebrafish):	rplp2l (ribosomal protein, large P2, like)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|PANTHER)
Danio rerio (zebrafish):	rplp2 (ribosomal protein, large P2)	Alliance	DIOPT (InParanoid\|OMA\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Caenorhabditis elegans (roundworm):	C37A2.7	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|SonicParanoid)
Saccharomyces cerevisiae (baker's yeast):	RPP2B	Alliance	DIOPT (Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|SonicParanoid)
Drosophila melanogaster (fruit fly):	RpLP2	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|SonicParanoid)
Caenorhabditis elegans (roundworm):	rla-2	Alliance	DIOPT (Hieranoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER)
Xenopus tropicalis (tropical clawed frog):	rplp2	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|PANTHER\|SonicParanoid)

Latest Assembly:

mRatBN7.2 - mRatBN7.2 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	15	67,638,365 - 67,638,804 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	15	67,638,364 - 67,638,823 (+)	Ensembl		mRatBN7.2 Ensembl
Rnor_6.0	15	75,067,284 - 75,067,724 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	15	75,067,297 - 75,067,723 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	15	78,627,980 - 78,628,416 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	15	74,072,039 - 74,072,476 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
Celera	15	67,074,653 - 67,075,093 (+)	NCBI		Celera
Cytogenetic Map	15	q21	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

cytoplasmic translational elongation (IEA)

Cellular Component

cytosolic large ribosomal subunit (IEA)

Molecular Function

structural constituent of ribosome (IEA)

References

References - curated

#	Reference Title	Reference Citation
1.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions

Genomics

Variants

Variants in LOC498555
1 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	10
Count of miRNA genes:	10
Interacting mature miRNAs:	10
Transcripts:	ENSRNOT00000057931
Prediction methods:	Miranda, Rnahybrid
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
61424	Scl1	Serum cholesterol level QTL 1	7.7	0.001	blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	15	16725528	80672115	Rat
1331729	Rf42	Renal function QTL 42	3.071		kidney blood vessel physiology trait (VT:0100012)	absolute change in renal blood flow rate (CMO:0001168)	15	17362897	73690657	Rat
1578646	Bmd18	Bone mineral density QTL 18	5.2		femur mineral mass (VT:0010011)	trabecular volumetric bone mineral density (CMO:0001729)	15	22806240	98288169	Rat
1578647	Bmd17	Bone mineral density QTL 17	4		femur mineral mass (VT:0010011)	total volumetric bone mineral density (CMO:0001728)	15	22806240	98288169	Rat
1578660	Bss19	Bone structure and strength QTL 19	4.3		femur morphology trait (VT:0000559)	bone trabecular cross-sectional area (CMO:0002311)	15	22806240	98288169	Rat
1582214	Stl21	Serum triglyceride level QTL 21	3.1	0.022	blood triglyceride amount (VT:0002644)	serum triglyceride level (CMO:0000360)	15	28030665	82262678	Rat
1582227	Gluco30	Glucose level QTL 30	3.6	0.0003	blood glucose amount (VT:0000188)	absolute change in blood glucose level area under curve (CMO:0002034)	15	28030665	82262678	Rat
1582228	Epfw3	Epididymal fat weight QTL 3	4.1	0.0002	epididymal fat pad mass (VT:0010421)	epididymal fat pad weight to body weight ratio (CMO:0000658)	15	28030665	82262678	Rat
1582242	Gluco28	Glucose level QTL 28	3.3	0.0008	blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	15	28030665	82262678	Rat
1582244	Bw79	Body weight QTL 79	4	0.0002	epididymal fat pad mass (VT:0010421)	epididymal fat pad weight to body weight ratio (CMO:0000658)	15	28030665	82262678	Rat
2293691	Bmd37	Bone mineral density QTL 37	6.6	0.0001	femur strength trait (VT:0010010)	femur total energy absorbed before break (CMO:0001677)	15	33611058	71477291	Rat
2293686	Bmd36	Bone mineral density QTL 36	7.4	0.0001	femur strength trait (VT:0010010)	femoral neck ultimate force (CMO:0001703)	15	33611058	71477291	Rat
1598828	Glom14	Glomerulus QTL 14	2.5		kidney glomerulus morphology trait (VT:0005325)	index of glomerular damage (CMO:0001135)	15	34054139	79054139	Rat
1300144	Rf23	Renal function QTL 23	3.61		renal blood flow trait (VT:2000006)	absolute change in renal vascular resistance (CMO:0001900)	15	40631268	98288169	Rat
724545	Niddm54	Non-insulin dependent diabetes mellitus QTL 54		0.02	blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	15	50794494	73699215	Rat
2317050	Aia24	Adjuvant induced arthritis QTL 24	2.06		joint integrity trait (VT:0010548)	left rear ankle joint diameter (CMO:0002149)	15	52847908	73690657	Rat
1576315	Schws6	Schwannoma susceptibility QTL 6		0.0069	nervous system integrity trait (VT:0010566)	post-insult time of death (CMO:0002005)	15	53806152	98806152	Rat
61477	Aia4	Adjuvant induced arthritis QTL 4	3		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	15	55596089	91365858	Rat
631516	Gluco31	Glucose level QTL 31	7		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	15	55596089	95018120	Rat
631655	Bp126	Blood pressure QTL 126	4		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	15	58156477	101769107	Rat
2313080	Bss65	Bone structure and strength QTL 65	3.9	0.0001	long bone metaphysis morphology trait (VT:0000133)	tibia midshaft total cross-sectional area (CMO:0001715)	15	60990468	73690657	Rat
731177	Uae26	Urinary albumin excretion QTL 26	2.4	0.025	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	15	67588667	101769107	Rat

Markers in Region

RH127513

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	15	67,638,524 - 67,638,739 (-)	MAPPER	mRatBN7.2
mRatBN7.2	15	67,638,524 - 67,638,739 (+)	MAPPER	mRatBN7.2
mRatBN7.2	14	42,745,339 - 42,745,554 (+)	MAPPER	mRatBN7.2
Rnor_6.0	14	44,375,488 - 44,375,702	NCBI	Rnor6.0
Rnor_6.0	15	75,067,443 - 75,067,657	NCBI	Rnor6.0
Rnor_5.0	14	44,195,035 - 44,195,249	UniSTS	Rnor5.0
Rnor_5.0	15	78,628,135 - 78,628,349	UniSTS	Rnor5.0
RGSC_v3.4	14	45,439,196 - 45,439,410	UniSTS	RGSC3.4
RGSC_v3.4	15	74,072,195 - 74,072,409	UniSTS	RGSC3.4
Celera	15	67,074,812 - 67,075,026	UniSTS
Celera	14	41,896,305 - 41,896,519	UniSTS
Cytogenetic Map	15	q21	UniSTS
Cytogenetic Map	1	q41	UniSTS

RH129225

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	15	67,638,528 - 67,638,740 (+)	MAPPER	mRatBN7.2
mRatBN7.2	14	42,745,338 - 42,745,550 (-)	MAPPER	mRatBN7.2
mRatBN7.2	14	42,745,338 - 42,745,550 (+)	MAPPER	mRatBN7.2
mRatBN7.2	15	67,638,528 - 67,638,740 (-)	MAPPER	mRatBN7.2
Rnor_6.0	15	75,067,447 - 75,067,658	NCBI	Rnor6.0
Rnor_6.0	14	44,375,487 - 44,375,698	NCBI	Rnor6.0
Rnor_5.0	14	44,195,034 - 44,195,245	UniSTS	Rnor5.0
Rnor_5.0	15	78,628,139 - 78,628,350	UniSTS	Rnor5.0
RGSC_v3.4	14	45,439,195 - 45,439,406	UniSTS	RGSC3.4
RGSC_v3.4	15	74,072,199 - 74,072,410	UniSTS	RGSC3.4
Celera	15	67,074,816 - 67,075,027	UniSTS
Celera	14	41,896,304 - 41,896,515	UniSTS
Cytogenetic Map	15	q21	UniSTS
Cytogenetic Map	1	q41	UniSTS

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	3	43	57	41	19	41	8	11	74	35	41	11	8
Low
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_039093959	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XR_595804	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XR_596239	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	JACYVU010000272	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000057931 ⟹ ENSRNOP00000054740

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	15	67,638,364 - 67,638,823 (+)	Ensembl
Rnor_6.0 Ensembl	15	75,067,297 - 75,067,723 (+)	Ensembl

RefSeq Acc Id:

XM_039093959 ⟹ XP_038949887

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	15	67,638,365 - 67,638,804 (+)	NCBI

Protein Sequences


Protein RefSeqs	XP_038949887	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

ENSRNOP00000054740 ⟸ ENSRNOT00000057931

RefSeq Acc Id:	XP_038949887 ⟸ XM_039093959
- UniProtKB:	D4A4D5 (UniProtKB/TrEMBL)

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-D4A4D5-F1-model_v2	AlphaFold	D4A4D5	1-115	view protein structure

Transcriptome

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

Promoters

RGD ID:

13699862

Promoter ID:

EPDNEW_R10380

Type:

initiation region

Name:

LOC498555_1

Description:

similar to 60S acidic ribosomal protein P2

SO ACC ID:

SO:0000170

Source:

EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)

Experiment Methods:

Single-end sequencing.

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	15	75,067,283 - 75,067,343	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1590791	AgrOrtholog
BioCyc Gene	G2FUF-12878	BioCyc
Ensembl Genes	ENSRNOG00000038074	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein	ENSRNOP00000054740	ENTREZGENE
	ENSRNOP00000054740.2	UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000057931	ENTREZGENE
	ENSRNOT00000057931.5	UniProtKB/TrEMBL
Gene3D-CATH	1.10.10.1410	UniProtKB/TrEMBL
InterPro	P1/P2_N_sf	UniProtKB/TrEMBL
	Ribosomal_L12	UniProtKB/TrEMBL
	Ribosomal_P2	UniProtKB/TrEMBL
NCBI Gene	498555	ENTREZGENE
PANTHER	60S ACIDIC RIBOSOMAL PROTEIN P2	UniProtKB/TrEMBL
	PTHR21141	UniProtKB/TrEMBL
Pfam	Ribosomal_60s	UniProtKB/TrEMBL
PhenoGen	LOC498555	PhenoGen
UniProt	D4A4D5	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2006-11-20	LOC498555	similar to 60S acidic ribosomal protein P2			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)

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