Golga6l9 (golgin A6 family like 9) - Rat Genome Database

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Gene: Golga6l9 (golgin A6 family like 9) Rattus norvegicus
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Symbol: Golga6l9
Name: golgin A6 family like 9
RGD ID: 1306441
Description: Orthologous to human GOLGA6L9 (golgin A6 family like 9); INTERACTS WITH bisphenol A; PCB138; 2,3,7,8-tetrachlorodibenzodioxine (ortholog).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: hypothetical protein LOC290425; LOC290425; RGD1306441; similar to RIKEN cDNA 4921530L21; spermatid associated like; Spertl; uncharacterized protein LOC290425
RGD Orthologs
Human
Mouse
Dog
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81578,872,177 - 78,876,741 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1578,875,241 - 78,876,736 (+)EnsemblGRCr8
mRatBN7.21572,464,157 - 72,468,708 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1572,466,016 - 72,468,703 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1576,484,138 - 76,485,633 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01577,569,365 - 77,570,860 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01574,508,296 - 74,509,791 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01580,037,791 - 80,042,342 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1580,040,842 - 80,042,337 (+)Ensemblrn6Rnor6.0
Rnor_5.01583,577,251 - 83,581,802 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41579,057,753 - 79,059,248 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1571,764,068 - 71,765,563 (+)NCBICelera
RGSC_v3.11579,070,476 - 79,075,033 (+)NCBI
Cytogenetic Map15q21NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Function

References
Additional References at PubMed
PMID:12477932   PMID:21873635  


Genomics

Comparative Map Data
Golga6l9
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81578,872,177 - 78,876,741 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1578,875,241 - 78,876,736 (+)EnsemblGRCr8
mRatBN7.21572,464,157 - 72,468,708 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1572,466,016 - 72,468,703 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1576,484,138 - 76,485,633 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01577,569,365 - 77,570,860 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01574,508,296 - 74,509,791 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01580,037,791 - 80,042,342 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1580,040,842 - 80,042,337 (+)Ensemblrn6Rnor6.0
Rnor_5.01583,577,251 - 83,581,802 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41579,057,753 - 79,059,248 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1571,764,068 - 71,765,563 (+)NCBICelera
RGSC_v3.11579,070,476 - 79,075,033 (+)NCBI
Cytogenetic Map15q21NCBI
GOLGA6L9
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381582,415,923 - 82,439,153 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1582,429,816 - 82,439,153 (+)Ensemblhg38GRCh38
GRCh371582,722,021 - 82,731,353 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361580,509,240 - 80,518,642 (+)NCBIBuild 36Build 36hg18NCBI36
Cytogenetic Map15q25.2NCBI
CHM1_11582,840,353 - 82,849,760 (+)NCBICHM1_1
T2T-CHM13v2.01580,293,944 - 80,303,281 (+)NCBIT2T-CHM13v2.0
Ccdc202
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391496,114,791 - 96,120,216 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1496,118,690 - 96,120,216 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm381495,881,254 - 95,882,780 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1495,881,254 - 95,882,780 (+)Ensemblmm10GRCm38
MGSCv371496,280,485 - 96,281,994 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361494,764,400 - 94,765,909 (+)NCBIMGSCv36mm8
Celera1494,437,061 - 94,438,570 (+)NCBICelera
Cytogenetic Map14E2.1NCBI
cM Map1446.92NCBI
LOC102155880
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11851,423,804 - 51,425,629 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1850,032,337 - 50,034,139 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha

Variants

.
Variants in Golga6l9
22 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:90
Count of miRNA genes:86
Interacting mature miRNAs:88
Transcripts:ENSRNOT00000043065
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
731177Uae26Urinary albumin excretion QTL 262.40.025urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1567588667101769107Rat
1576315Schws6Schwannoma susceptibility QTL 60.0069nervous system integrity trait (VT:0010566)post-insult time of death (CMO:0002005)155380615298806152Rat
1300144Rf23Renal function QTL 233.61renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)154063126898288169Rat
61477Aia4Adjuvant induced arthritis QTL 43joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)155559608991365858Rat
1331729Rf42Renal function QTL 423.071kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)151736289773690657Rat
2300326Plaw1Placental weight QTL 1150.005placenta mass (VT:0004257)placenta wet weight (CMO:0002088)1568327165100062518Rat
724545Niddm54Non-insulin dependent diabetes mellitus QTL 540.02blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)155079449473699215Rat
152025253Hrtrt24Heart rate QTL 243.82heart pumping trait (VT:2000009)152788577486257085Rat
1582227Gluco30Glucose level QTL 303.60.0003blood glucose amount (VT:0000188)absolute change in blood glucose level area under curve (CMO:0002034)152803066582262678Rat
1582228Epfw3Epididymal fat weight QTL 34.10.0002epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)152803066582262678Rat
631655Bp126Blood pressure QTL 1264arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1558156477101769107Rat
1578646Bmd18Bone mineral density QTL 185.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)152280624098288169Rat
724548Niddm55Non-insulin dependent diabetes mellitus QTL 550.02blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)156832736073699069Rat
1578647Bmd17Bone mineral density QTL 174femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)152280624098288169Rat
61424Scl1Serum cholesterol level QTL 17.70.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)151672552880672115Rat
1598828Glom14Glomerulus QTL 142.5kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)153405413979054139Rat
631516Gluco31Glucose level QTL 317blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)155559608995018120Rat
2317050Aia24Adjuvant induced arthritis QTL 242.06joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)155284790873690657Rat
1582242Gluco28Glucose level QTL 283.30.0008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)152803066582262678Rat
2313080Bss65Bone structure and strength QTL 653.90.0001long bone metaphysis morphology trait (VT:0000133)tibia midshaft total cross-sectional area (CMO:0001715)156099046873690657Rat
1582244Bw79Body weight QTL 7940.0002epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)152803066582262678Rat
1578660Bss19Bone structure and strength QTL 194.3femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)152280624098288169Rat
1582214Stl21Serum triglyceride level QTL 213.10.022blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)152803066582262678Rat


Expression

RNA-SEQ Expression

appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
7 5 43 24 25 16 45 16 87 61 11 33 4 57 9

Sequence


Ensembl Acc Id: ENSRNOT00000043065   ⟹   ENSRNOP00000048873
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1578,875,241 - 78,876,736 (+)Ensembl
mRatBN7.2 Ensembl1572,467,208 - 72,468,703 (+)Ensembl
Rnor_6.0 Ensembl1580,040,842 - 80,042,337 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000117788   ⟹   ENSRNOP00000086271
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1572,466,016 - 72,468,688 (+)Ensembl
RefSeq Acc Id: NM_001106053   ⟹   NP_001099523
RefSeq Status: PREDICTED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81578,875,241 - 78,876,736 (+)NCBI
mRatBN7.21572,467,208 - 72,468,703 (+)NCBI
Rnor_6.01580,040,842 - 80,042,337 (+)NCBI
Rnor_5.01583,577,251 - 83,581,802 (+)NCBI
RGSC_v3.41579,057,753 - 79,059,248 (+)RGD
Celera1571,764,068 - 71,765,563 (+)RGD
Sequence:
RefSeq Acc Id: XM_006252385   ⟹   XP_006252447
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81578,875,098 - 78,876,741 (+)NCBI
mRatBN7.21572,467,064 - 72,468,708 (+)NCBI
Rnor_6.01580,040,780 - 80,042,342 (+)NCBI
Rnor_5.01583,577,251 - 83,581,802 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006252386   ⟹   XP_006252448
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81578,872,177 - 78,876,741 (+)NCBI
mRatBN7.21572,464,157 - 72,468,708 (+)NCBI
Rnor_6.01580,037,791 - 80,042,342 (+)NCBI
Rnor_5.01583,577,251 - 83,581,802 (+)NCBI
Sequence:
RefSeq Acc Id: XM_063274168   ⟹   XP_063130238
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81578,875,221 - 78,876,741 (+)NCBI
RefSeq Acc Id: NP_001099523   ⟸   NM_001106053
- UniProtKB: D4ADT0 (UniProtKB/TrEMBL),   A6HU42 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006252448   ⟸   XM_006252386
- Peptide Label: isoform X1
- UniProtKB: D4ADT0 (UniProtKB/TrEMBL),   A6HU42 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006252447   ⟸   XM_006252385
- Peptide Label: isoform X1
- Sequence:
Ensembl Acc Id: ENSRNOP00000048873   ⟸   ENSRNOT00000043065
Ensembl Acc Id: ENSRNOP00000086271   ⟸   ENSRNOT00000117788
RefSeq Acc Id: XP_063130238   ⟸   XM_063274168
- Peptide Label: isoform X1

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4ADT0-F1-model_v2 AlphaFold D4ADT0 1-274 view protein structure

Transcriptome

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

Promoters
RGD ID:13699858
Promoter ID:EPDNEW_R10381
Type:single initiation site
Name:RGD1306441_1
Description:similar to RIKEN cDNA 4921530L21
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01580,040,809 - 80,040,869EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1306441 AgrOrtholog
BioCyc Gene G2FUF-12817 BioCyc
Ensembl Genes ENSRNOG00000031449 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000043065 ENTREZGENE
  ENSRNOT00000043065.4 UniProtKB/TrEMBL
  ENSRNOT00000117788.1 UniProtKB/TrEMBL
InterPro ZBED2/3 UniProtKB/TrEMBL
KEGG Report rno:290425 UniProtKB/TrEMBL
NCBI Gene 290425 ENTREZGENE
PANTHER ZINC FINGER BED DOMAIN-CONTAINING PROTEIN 3 UniProtKB/TrEMBL
  ZINC FINGER BED DOMAIN-CONTAINING PROTEIN 3 UniProtKB/TrEMBL
PhenoGen Golga6l9 PhenoGen
RatGTEx ENSRNOG00000031449 RatGTEx
UniProt A6HU42 ENTREZGENE, UniProtKB/TrEMBL
  D4ADT0 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2023-10-27 Golga6l9  golgin A6 family like 9  Spertl  spermatid associated like  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2022-09-15 Spertl  spermatid associated like  Golga6l9  golgin A6 family like 9  Name and Symbol changed 629549 APPROVED
2022-07-05 Golga6l9  golgin A6 family like 9  RGD1306441  similar to RIKEN cDNA 4921530L21  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 RGD1306441  similar to RIKEN cDNA 4921530L21  RGD1306441_predicted  similar to RIKEN cDNA 4921530L21 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-20 RGD1306441_predicted  similar to RIKEN cDNA 4921530L21 (predicted)  LOC290425_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC290425_predicted  similar to RIKEN cDNA 4921530L21 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL