Gpkow (G patch domain and KOW motifs) - Rat Genome Database

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Gene: Gpkow (G patch domain and KOW motifs) Rattus norvegicus
Analyze
Symbol: Gpkow
Name: G patch domain and KOW motifs
RGD ID: 1583600
Description: Predicted to enable RNA binding activity. Predicted to be involved in mRNA splicing, via spliceosome. Predicted to be located in nucleoplasm. Predicted to be part of spliceosomal complex. Orthologous to human GPKOW (G-patch domain and KOW motifs); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; bisphenol A; glafenine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: G patch domain and KOW motifs-containing protein; LOC679890; similar to G patch domain and KOW motifs
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X17,463,521 - 17,478,298 (-)NCBIGRCr8
mRatBN7.2X14,791,601 - 14,806,384 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX14,791,610 - 14,806,384 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX19,605,743 - 19,620,476 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X20,462,644 - 20,477,377 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X16,727,810 - 16,742,543 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X15,636,567 - 15,651,332 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX15,636,563 - 15,651,332 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X16,418,016 - 16,433,060 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X26,832,382 - 26,846,629 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
CeleraX14,875,812 - 14,890,681 (-)NCBICelera
Cytogenetic MapXq12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
nucleoplasm  (IEA,ISO)
nucleus  (ISO)
spliceosomal complex  (IBA,ISO)

Molecular Function

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. GOA pipeline RGD automated data pipeline
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932   PMID:21880142   PMID:25296192  


Genomics

Comparative Map Data
Gpkow
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X17,463,521 - 17,478,298 (-)NCBIGRCr8
mRatBN7.2X14,791,601 - 14,806,384 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX14,791,610 - 14,806,384 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX19,605,743 - 19,620,476 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X20,462,644 - 20,477,377 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X16,727,810 - 16,742,543 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X15,636,567 - 15,651,332 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX15,636,563 - 15,651,332 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X16,418,016 - 16,433,060 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X26,832,382 - 26,846,629 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
CeleraX14,875,812 - 14,890,681 (-)NCBICelera
Cytogenetic MapXq12NCBI
GPKOW
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X49,113,407 - 49,123,735 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX49,113,407 - 49,123,735 (-)EnsemblGRCh38hg38GRCh38
GRCh37X48,970,345 - 48,980,085 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36X48,857,289 - 48,867,023 (-)NCBINCBI36Build 36hg18NCBI36
Build 34X48,726,594 - 48,736,328NCBI
CeleraX52,684,416 - 52,695,473 (+)NCBICelera
Cytogenetic MapXp11.23NCBI
HuRefX46,625,773 - 46,637,258 (-)NCBIHuRef
CHM1_1X49,001,472 - 49,012,544 (-)NCBICHM1_1
T2T-CHM13v2.0X48,525,155 - 48,536,289 (-)NCBIT2T-CHM13v2.0
Gpkow
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X7,563,373 - 7,576,500 (+)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX7,563,370 - 7,576,501 (+)EnsemblGRCm39 Ensembl
GRCm38X7,697,134 - 7,710,261 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX7,697,131 - 7,710,262 (+)EnsemblGRCm38mm10GRCm38
MGSCv37X7,274,260 - 7,287,387 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36X6,854,172 - 6,867,216 (+)NCBIMGSCv36mm8
CeleraX3,760,344 - 3,773,449 (-)NCBICelera
Cytogenetic MapXA1.1NCBI
cM MapX3.47NCBI
Gpkow
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_004955543625,247 - 633,065 (-)NCBIChiLan1.0ChiLan1.0
GPKOW
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2X50,604,902 - 50,616,027 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1X50,600,117 - 50,618,950 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0X41,413,165 - 41,423,780 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1X49,267,657 - 49,278,495 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX49,267,657 - 49,278,495 (-)Ensemblpanpan1.1panPan2
GPKOW
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X42,248,121 - 42,266,747 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX42,248,611 - 42,257,286 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaX16,624,278 - 16,642,670 (-)NCBIDog10K_Boxer_Tasha
Gpkow
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X34,773,387 - 34,790,689 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049367211,011,492 - 1,031,440 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049367211,013,776 - 1,031,018 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
GPKOW
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX43,177,272 - 43,191,830 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1X43,177,264 - 43,192,021 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X48,025,071 - 48,039,785 (-)NCBISscrofa10.2Sscrofa10.2susScr3
GPKOW
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X46,212,415 - 46,227,315 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 EnsemblX46,209,373 - 46,227,250 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366607611,779,954 - 11,790,503 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Gpkow
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624893871,355 - 879,674 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624893871,163 - 879,709 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Gpkow
49 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:564
Count of miRNA genes:289
Interacting mature miRNAs:374
Transcripts:ENSRNOT00000039000
Prediction methods:Miranda, Pita, 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.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70165Bp64Blood pressure QTL 645.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)X144812931706553Rat
1298071Edpm12Estrogen-dependent pituitary mass QTL 123.2pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)X292789847927898Rat
731181Uae27Urinary albumin excretion QTL 272.70.0059urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)X143491017Rat
10755455Coatc13Coat color QTL 130coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)7440600049406000Rat
631666Iddm5Insulin dependent diabetes mellitus QTL 5blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)X449454949494549Rat
634325Bw13Body weight QTL 130body mass (VT:0001259)body weight (CMO:0000012)X144797220991088Rat
631204Gluco15Glucose level QTL 150.001blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)X162371522646544Rat

Markers in Region
BF397094  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X14,793,006 - 14,793,154 (+)MAPPERmRatBN7.2
Rnor_6.0X15,637,964 - 15,638,111NCBIRnor6.0
Rnor_5.0X16,419,413 - 16,419,560UniSTSRnor5.0
RGSC_v3.4X26,833,779 - 26,833,926UniSTSRGSC3.4
CeleraX14,877,209 - 14,877,356UniSTS
RH 3.4 MapX157.3UniSTS
Cytogenetic MapXq13UniSTS
RH143131  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X14,793,973 - 14,794,166 (+)MAPPERmRatBN7.2
Rnor_6.0X15,638,931 - 15,639,123NCBIRnor6.0
Rnor_5.0X16,420,380 - 16,420,572UniSTSRnor5.0
RGSC_v3.4X26,834,746 - 26,834,938UniSTSRGSC3.4
CeleraX14,878,175 - 14,878,367UniSTS
RH 3.4 MapX165.3UniSTS
Cytogenetic MapXq13UniSTS


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
nervous system
renal system
reproductive system
respiratory system
9 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31

Sequence


Ensembl Acc Id: ENSRNOT00000039000   ⟹   ENSRNOP00000031422
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX14,791,610 - 14,806,384 (-)Ensembl
Rnor_6.0 EnsemblX15,636,563 - 15,651,332 (-)Ensembl
RefSeq Acc Id: NM_001109381   ⟹   NP_001102851
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X17,463,525 - 17,478,298 (-)NCBI
mRatBN7.2X14,791,610 - 14,806,384 (-)NCBI
Rnor_6.0X15,636,567 - 15,651,332 (-)NCBI
Rnor_5.0X16,418,016 - 16,433,060 (-)NCBI
RGSC_v3.4X26,832,382 - 26,846,629 (-)RGD
CeleraX14,875,812 - 14,890,681 (-)RGD
Sequence:
RefSeq Acc Id: XM_063280299   ⟹   XP_063136369
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X17,463,521 - 17,476,914 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001102851 (Get FASTA)   NCBI Sequence Viewer  
  XP_063136369 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAI66817 (Get FASTA)   NCBI Sequence Viewer  
  EDL83835 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000031422.4
RefSeq Acc Id: NP_001102851   ⟸   NM_001109381
- UniProtKB: G3V8Z3 (UniProtKB/TrEMBL),   A6KP87 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000031422   ⟸   ENSRNOT00000039000
RefSeq Acc Id: XP_063136369   ⟸   XM_063280299
- Peptide Label: isoform X1
Protein Domains
G-patch

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-G3V8Z3-F1-model_v2 AlphaFold G3V8Z3 1-487 view protein structure

Transcriptome

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

Promoters
RGD ID:13701746
Promoter ID:EPDNEW_R12270
Type:multiple initiation site
Name:Gpkow_1
Description:G patch domain and KOW motifs
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_6.0X15,651,249 - 15,651,309EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1583600 AgrOrtholog
BioCyc Gene G2FUF-2913 BioCyc
Ensembl Genes ENSRNOG00000022939 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000039000.6 UniProtKB/TrEMBL
Gene3D-CATH 2.30.30.30 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:8365193 IMAGE-MGC_LOAD
InterPro G_patch UniProtKB/TrEMBL
  GPKOW_KOW1 UniProtKB/TrEMBL
  GPKOW_KOW2 UniProtKB/TrEMBL
  KOW UniProtKB/TrEMBL
  Rib_L2_dom2 UniProtKB/TrEMBL
  Spp2-like UniProtKB/TrEMBL
  Spp2/MOS2_G-patch UniProtKB/TrEMBL
  Translation_prot_SH3-like_sf UniProtKB/TrEMBL
KEGG Report rno:679890 UniProtKB/TrEMBL
MGC_CLONE MGC:188683 IMAGE-MGC_LOAD
NCBI Gene 679890 ENTREZGENE
PANTHER G-PATCH DOMAIN AND KOW MOTIFS-CONTAINING PROTEIN UniProtKB/TrEMBL
  PTHR15818 UniProtKB/TrEMBL
Pfam G-patch_2 UniProtKB/TrEMBL
  KOW UniProtKB/TrEMBL
PhenoGen Gpkow PhenoGen
PROSITE G_PATCH UniProtKB/TrEMBL
RatGTEx ENSRNOG00000022939 RatGTEx
SMART G_patch UniProtKB/TrEMBL
  KOW UniProtKB/TrEMBL
Superfamily-SCOP SSF50104 UniProtKB/TrEMBL
UniProt A6KP87 ENTREZGENE, UniProtKB/TrEMBL
  B2RYL0_RAT UniProtKB/TrEMBL
  G3V8Z3 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-05 Gpkow  G patch domain and KOW motifs  LOC679890  similar to G patch domain and KOW motifs  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-01-09 LOC679890  similar to G patch domain and KOW motifs  LOC682436  similar to G patch domain and KOW motifs  Data merged from RGD:1583456 1643240 APPROVED
2006-11-19 LOC679890  similar to G patch domain and KOW motifs      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-19 LOC682436  similar to G patch domain and KOW motifs      Symbol and Name status set to provisional 70820 PROVISIONAL