Ginm1 (glycosylated integral membrane protein 1) - Rat Genome Database

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Gene: Ginm1 (glycosylated integral membrane protein 1) Rattus norvegicus
Analyze
Symbol: Ginm1
Name: glycosylated integral membrane protein 1
RGD ID: 1309759
Description: Orthologous to human GINM1 (glycosylated integral membrane protein 1); INTERACTS WITH 2,3,7,8-Tetrachlorodibenzofuran; 6-propyl-2-thiouracil; amitrole.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: glycoprotein integral membrane 1; glycoprotein integral membrane protein 1; LOC361448; RGD1309759; similar to cDNA sequence BC013529
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr814,066,766 - 4,082,640 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl14,066,766 - 4,082,617 (-)EnsemblGRCr8
mRatBN7.212,246,384 - 2,262,260 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl12,246,394 - 2,262,217 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx11,896,216 - 1,912,079 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.017,896,618 - 7,912,483 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.012,178,323 - 2,194,190 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.011,870,039 - 1,885,976 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl11,870,388 - 1,885,981 (-)Ensemblrn6Rnor6.0
Rnor_5.013,566,597 - 3,582,594 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.412,438,830 - 2,455,290 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1795,143 - 810,978 (-)NCBICelera
RGSC_v3.112,438,995 - 2,455,285 (-)NCBI
Cytogenetic Map1p13NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:23376485  


Genomics

Comparative Map Data
Ginm1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr814,066,766 - 4,082,640 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl14,066,766 - 4,082,617 (-)EnsemblGRCr8
mRatBN7.212,246,384 - 2,262,260 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl12,246,394 - 2,262,217 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx11,896,216 - 1,912,079 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.017,896,618 - 7,912,483 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.012,178,323 - 2,194,190 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.011,870,039 - 1,885,976 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl11,870,388 - 1,885,981 (-)Ensemblrn6Rnor6.0
Rnor_5.013,566,597 - 3,582,594 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.412,438,830 - 2,455,290 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1795,143 - 810,978 (-)NCBICelera
RGSC_v3.112,438,995 - 2,455,285 (-)NCBI
Cytogenetic Map1p13NCBI
GINM1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh386149,566,375 - 149,591,748 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl6149,566,206 - 149,591,748 (+)Ensemblhg38GRCh38
GRCh376149,887,511 - 149,912,884 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 366149,929,217 - 149,953,760 (+)NCBIBuild 36Build 36hg18NCBI36
Build 346149,929,220 - 149,953,760NCBI
Celera6150,622,574 - 150,647,109 (+)NCBICelera
Cytogenetic Map6q25.1NCBI
HuRef6147,454,156 - 147,478,695 (+)NCBIHuRef
CHM1_16150,152,232 - 150,176,773 (+)NCBICHM1_1
T2T-CHM13v2.06150,766,116 - 150,791,484 (+)NCBIT2T-CHM13v2.0
Ginm1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39107,643,711 - 7,656,681 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl107,643,711 - 7,668,588 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm38107,767,947 - 7,780,950 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl107,767,947 - 7,792,824 (-)Ensemblmm10GRCm38
MGSCv37107,487,745 - 7,500,715 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36107,458,140 - 7,471,107 (-)NCBIMGSCv36mm8
Celera107,646,399 - 7,659,429 (-)NCBICelera
Cytogenetic Map10A1NCBI
cM Map102.35NCBI
Ginm1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495543911,660,915 - 11,688,108 (-)Ensembl
ChiLan1.0NW_00495543911,661,013 - 11,688,004 (-)NCBIChiLan1.0ChiLan1.0
GINM1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v25169,591,691 - 169,617,218 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan16167,485,278 - 167,510,792 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v06147,385,283 - 147,410,740 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.16152,091,069 - 152,115,862 (+)NCBIPanPan1.1PanPan1.1panPan2
GINM1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1140,349,325 - 40,374,268 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl140,349,141 - 40,374,199 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha141,186,520 - 41,212,163 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0140,529,405 - 40,556,488 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl140,522,091 - 40,554,488 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1140,405,570 - 40,430,875 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0140,270,570 - 40,297,633 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0140,611,438 - 40,638,518 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Ginm1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404946135,289,506 - 135,304,222 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364892,541,449 - 2,556,721 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049364892,541,507 - 2,556,942 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
GINM1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl116,360,370 - 16,381,864 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1116,362,777 - 16,381,897 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2118,690,574 - 18,702,882 (+)NCBISscrofa10.2Sscrofa10.2susScr3
GINM1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11322,042,159 - 22,069,569 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_023666040198,065,368 - 198,092,817 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ginm1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247858,467,443 - 8,502,699 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046247858,467,142 - 8,502,790 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Ginm1
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v12229,258,213 - 229,275,200 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Ginm1
166 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:65
Count of miRNA genes:59
Interacting mature miRNAs:63
Transcripts:ENSRNOT00000020810
Prediction methods:Miranda
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
1600360Mcs16Mammary carcinoma susceptibility QTL 162.4mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)1126564886Rat
70179Xhs2X-ray hypersensitivity QTL 23.2intestine integrity trait (VT:0010554)post-insult time to onset of moribundity (CMO:0001896)1143965634Rat
1354647Despr8Despair related QTL 80.0000341locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)1126564886Rat
2317755Glom22Glomerulus QTL 223.8urine protein amount (VT:0005160)urine protein level (CMO:0000591)1134184556Rat
1300170Rf6Renal function QTL 63.14renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)1128483164Rat


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 165 91 90 59 92 59 6 356 192 11 144 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000020810   ⟹   ENSRNOP00000020811
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl14,066,766 - 4,082,617 (-)Ensembl
mRatBN7.2 Ensembl12,246,394 - 2,262,217 (-)Ensembl
Rnor_6.0 Ensembl11,870,388 - 1,885,981 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000112697   ⟹   ENSRNOP00000080985
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl14,066,766 - 4,082,451 (-)Ensembl
mRatBN7.2 Ensembl12,246,394 - 2,258,003 (-)Ensembl
RefSeq Acc Id: NM_001400838   ⟹   NP_001387767
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr814,066,766 - 4,082,617 (-)NCBI
mRatBN7.212,246,387 - 2,262,238 (-)NCBI
RefSeq Acc Id: XM_006227627   ⟹   XP_006227689
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr814,066,766 - 4,078,527 (-)NCBI
mRatBN7.212,246,384 - 2,258,157 (-)NCBI
Rnor_6.011,870,039 - 1,881,858 (-)NCBI
Rnor_5.013,566,597 - 3,582,594 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039098446   ⟹   XP_038954374
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr814,066,766 - 4,082,596 (-)NCBI
mRatBN7.212,246,384 - 2,262,012 (-)NCBI
RefSeq Acc Id: XM_063265953   ⟹   XP_063122023
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr814,066,766 - 4,082,560 (-)NCBI
RefSeq Acc Id: XM_063265954   ⟹   XP_063122024
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr814,066,766 - 4,078,555 (-)NCBI
RefSeq Acc Id: XM_341726   ⟹   XP_341727
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr814,066,766 - 4,082,640 (-)NCBI
mRatBN7.212,246,384 - 2,262,260 (-)NCBI
Rnor_6.011,870,039 - 1,885,976 (-)NCBI
Rnor_5.013,566,597 - 3,582,594 (-)NCBI
RGSC_v3.412,438,830 - 2,455,290 (-)RGD
Sequence:
RefSeq Acc Id: XP_341727   ⟸   XM_341726
- Peptide Label: isoform X1
- UniProtKB: A0A8I5ZQP9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006227689   ⟸   XM_006227627
- Peptide Label: isoform X4
- UniProtKB: A0A8I5ZQP9 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000020811   ⟸   ENSRNOT00000020810
RefSeq Acc Id: XP_038954374   ⟸   XM_039098446
- Peptide Label: isoform X2
- UniProtKB: A0A8I5ZQP9 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000080985   ⟸   ENSRNOT00000112697
RefSeq Acc Id: NP_001387767   ⟸   NM_001400838
- Peptide Label: precursor
- UniProtKB: D3ZJB2 (UniProtKB/TrEMBL),   A6JP18 (UniProtKB/TrEMBL),   A0A8I5ZQP9 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063122023   ⟸   XM_063265953
- Peptide Label: isoform X3
- UniProtKB: A0A8I5ZQP9 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063122024   ⟸   XM_063265954
- Peptide Label: isoform X5
- UniProtKB: A0A8I5ZQP9 (UniProtKB/TrEMBL)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZJB2-F1-model_v2 AlphaFold D3ZJB2 1-329 view protein structure

Transcriptome

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

Promoters
RGD ID:13689485
Promoter ID:EPDNEW_R6
Type:initiation region
Name:Ginm1_1
Description:glycoprotein integral membrane 1
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_6.011,885,948 - 1,886,008EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1309759 AgrOrtholog
BioCyc Gene G2FUF-62447 BioCyc
Ensembl Genes ENSRNOG00000015239 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000020810 ENTREZGENE
  ENSRNOT00000020810.9 UniProtKB/TrEMBL
  ENSRNOT00000112697 ENTREZGENE
  ENSRNOT00000112697.2 UniProtKB/TrEMBL
InterPro GINM1 UniProtKB/TrEMBL
NCBI Gene 361448 ENTREZGENE
PANTHER GLYCOPROTEIN INTEGRAL MEMBRANE PROTEIN 1 UniProtKB/TrEMBL
  PTHR28549 UniProtKB/TrEMBL
PhenoGen Ginm1 PhenoGen
RatGTEx ENSRNOG00000015239 RatGTEx
UniProt A0A8I5ZQP9 ENTREZGENE, UniProtKB/TrEMBL
  A6JP18 ENTREZGENE, UniProtKB/TrEMBL
  D3ZJB2 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-04-21 Ginm1  glycosylated integral membrane protein 1  Ginm1  glycoprotein integral membrane 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-10-10 Ginm1  glycoprotein integral membrane 1  RGD1309759  similar to cDNA sequence BC013529  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1309759  similar to cDNA sequence BC013529   RGD1309759_predicted  similar to cDNA sequence BC013529 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-20 RGD1309759_predicted  similar to cDNA sequence BC013529 (predicted)  LOC361448_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC361448_predicted  similar to cDNA sequence BC013529 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL