Gpatch2 (G patch domain containing 2) - Rat Genome Database
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Gene: Gpatch2 (G patch domain containing 2) Rattus norvegicus
Analyze
Symbol: Gpatch2
Name: G patch domain containing 2
RGD ID: 1308865
Description: Predicted to be involved in negative regulation of phosphatase activity. Predicted to localize to nuclear speck. Orthologous to human GPATCH2 (G-patch domain containing 2); INTERACTS WITH 2,3,7,8-Tetrachlorodibenzofuran; bisphenol A; C60 fullerene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: G patch domain-containing protein 2; Gpatc2; LOC289362
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21398,784,969 - 98,925,696 (+)NCBI
Rnor_6.0 Ensembl13105,684,420 - 105,815,606 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.013105,684,300 - 105,824,405 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.013110,334,061 - 110,473,833 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.413103,353,994 - 103,371,422 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.113103,543,036 - 103,560,464 (+)NCBI
Celera1398,284,103 - 98,301,528 (+)NCBICelera
Cytogenetic Map13q26NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
nuclear speck  (IEA,ISO)

Molecular Function

References

Additional References at PubMed
PMID:12477932   PMID:19389623  


Genomics

Comparative Map Data
Gpatch2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21398,784,969 - 98,925,696 (+)NCBI
Rnor_6.0 Ensembl13105,684,420 - 105,815,606 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.013105,684,300 - 105,824,405 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.013110,334,061 - 110,473,833 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.413103,353,994 - 103,371,422 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.113103,543,036 - 103,560,464 (+)NCBI
Celera1398,284,103 - 98,301,528 (+)NCBICelera
Cytogenetic Map13q26NCBI
GPATCH2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1217,426,992 - 217,631,090 (-)EnsemblGRCh38hg38GRCh38
GRCh381217,426,992 - 217,631,090 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371217,600,334 - 217,804,432 (-)NCBIGRCh37GRCh37hg19GRCh37
GRCh371217,603,834 - 217,804,426 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361215,670,457 - 215,871,032 (-)NCBINCBI36hg18NCBI36
Build 341213,992,228 - 214,192,804NCBI
Celera1190,827,684 - 191,027,875 (-)NCBI
Cytogenetic Map1q41NCBI
HuRef1188,278,921 - 188,478,906 (-)NCBIHuRef
CHM1_11218,873,188 - 219,077,212 (-)NCBICHM1_1
Gpatch2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391186,946,855 - 187,103,839 (+)NCBIGRCm39mm39
GRCm381187,214,606 - 187,371,645 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1187,215,508 - 187,351,704 (+)EnsemblGRCm38mm10GRCm38
MGSCv371189,039,390 - 189,175,324 (+)NCBIGRCm37mm9NCBIm37
MGSCv361188,916,327 - 189,052,233 (+)NCBImm8
Celera1194,141,999 - 194,286,287 (+)NCBICelera
Cytogenetic Map1H5NCBI
Gpatch2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955406800,453 - 963,069 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955406800,496 - 963,004 (+)NCBIChiLan1.0ChiLan1.0
GPATCH2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11197,857,935 - 198,059,484 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1197,857,941 - 198,059,474 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01193,003,601 - 193,205,432 (-)NCBIMhudiblu_PPA_v0panPan3
GPATCH2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl3812,685,619 - 12,850,529 (-)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.13812,682,263 - 12,850,587 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Gpatch2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049366281,006,216 - 1,181,124 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
GPATCH2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl107,615,592 - 7,797,191 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1107,615,121 - 7,797,227 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2109,648,001 - 9,812,655 (-)NCBISscrofa10.2Sscrofa10.2susScr3
GPATCH2
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12511,956,218 - 12,154,532 (+)NCBI
Gpatch2
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248351,624,428 - 1,796,095 (-)NCBI


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131107975663Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)131107975663Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)131107975663Rat
1581570Eae17Experimental allergic encephalomyelitis QTL 174.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)1312193394108478121Rat
7207885Glom27Glomerulus QTL 273.9kidney glomerulus integrity trait (VT:0010546)kidney crescentic glomeruli count to kidney normal glomeruli count ratio (CMO:0002139)1324502279108770533Rat
1354621Rf47Renal function QTL 473.7kidney renin amount (VT:0010559)kidney renin level (CMO:0002166)1335301263107975663Rat
1354655Bp241Blood pressure QTL 2413.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1362975663107975663Rat
12879475Bp400Blood pressure QTL 400arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1366971778111971778Rat
2293687Bss26Bone structure and strength QTL 264.60.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)1371230858114033958Rat
2293702Bss34Bone structure and strength QTL 344.610.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1371230858114033958Rat
7387280Uae43Urinary albumin excretion QTL 435.690.4174urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1372583716114033958Rat
10755455Coatc13Coat color QTL 130coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)777694986114033958Rat
2293341Glom15Glomerulus QTL 159.1kidney glomerulus integrity trait (VT:0010546)kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)1380403559108770687Rat
4889606Gluco63Glucose level QTL 632.860.003blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1386833393114033958Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:29
Count of miRNA genes:28
Interacting mature miRNAs:29
Transcripts:ENSRNOT00000040543
Prediction methods:Microtar, 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.


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 4 28 12 18 12 66 31 39 11
Low 2 39 29 29 1 29 8 11 8 4 2 8
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001011909 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006250435 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006250439 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008769846 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090587 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090588 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090590 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090591 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090592 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090593 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090594 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090595 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090596 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090597 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005492230 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide BC079232 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473985 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ230498 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000245 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000040543   ⟹   ENSRNOP00000044043
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl13105,684,420 - 105,815,606 (+)Ensembl
RefSeq Acc Id: NM_001011909   ⟹   NP_001011909
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21398,785,017 - 98,802,445 (+)NCBI
Rnor_6.013105,684,487 - 105,701,916 (+)NCBI
Rnor_5.013110,334,061 - 110,473,833 (+)NCBI
RGSC_v3.413103,353,994 - 103,371,422 (+)RGD
Celera1398,284,103 - 98,301,528 (+)RGD
Sequence:
RefSeq Acc Id: XM_006250435   ⟹   XP_006250497
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21398,784,993 - 98,925,696 (+)NCBI
Rnor_6.013105,684,300 - 105,824,405 (+)NCBI
Rnor_5.013110,334,061 - 110,473,833 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006250439   ⟹   XP_006250501
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21398,784,969 - 98,925,696 (+)NCBI
Rnor_6.013105,684,300 - 105,824,405 (+)NCBI
Rnor_5.013110,334,061 - 110,473,833 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008769838   ⟹   XP_008768060
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.013105,684,300 - 105,824,405 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008769839   ⟹   XP_008768061
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.013105,686,609 - 105,824,405 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008769840   ⟹   XP_008768062
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.013105,684,634 - 105,824,405 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008769842   ⟹   XP_008768064
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.013105,684,300 - 105,824,405 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008769843   ⟹   XP_008768065
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.013105,684,300 - 105,817,668 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008769844   ⟹   XP_008768066
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.013105,684,300 - 105,817,668 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008769845   ⟹   XP_008768067
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.013105,684,300 - 105,817,668 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008769846   ⟹   XP_008768068
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21398,785,012 - 98,821,842 (+)NCBI
Rnor_6.013105,684,300 - 105,705,723 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017598742   ⟹   XP_017454231
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.013105,684,860 - 105,824,405 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017598743   ⟹   XP_017454232
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.013105,684,300 - 105,795,578 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039090587   ⟹   XP_038946515
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21398,785,016 - 98,925,696 (+)NCBI
RefSeq Acc Id: XM_039090588   ⟹   XP_038946516
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21398,785,012 - 98,925,696 (+)NCBI
RefSeq Acc Id: XM_039090590   ⟹   XP_038946518
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21398,785,161 - 98,925,696 (+)NCBI
RefSeq Acc Id: XM_039090591   ⟹   XP_038946519
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21398,785,012 - 98,918,959 (+)NCBI
RefSeq Acc Id: XM_039090592   ⟹   XP_038946520
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21398,785,012 - 98,918,959 (+)NCBI
RefSeq Acc Id: XM_039090593   ⟹   XP_038946521
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21398,785,012 - 98,918,959 (+)NCBI
RefSeq Acc Id: XM_039090594   ⟹   XP_038946522
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21398,785,012 - 98,922,229 (+)NCBI
RefSeq Acc Id: XM_039090595   ⟹   XP_038946523
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21398,785,012 - 98,918,959 (+)NCBI
RefSeq Acc Id: XM_039090596   ⟹   XP_038946524
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21398,785,012 - 98,918,959 (+)NCBI
RefSeq Acc Id: XM_039090597   ⟹   XP_038946525
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21398,785,017 - 98,925,696 (+)NCBI
RefSeq Acc Id: XR_005492230
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21398,785,012 - 98,915,806 (+)NCBI
RefSeq Acc Id: XR_595584
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.013105,684,300 - 105,814,505 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_001011909   ⟸   NM_001011909
- UniProtKB: Q6AY15 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006250501   ⟸   XM_006250439
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_006250497   ⟸   XM_006250435
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008768068   ⟸   XM_008769846
- Peptide Label: isoform X10
- Sequence:
RefSeq Acc Id: XP_008768060   ⟸   XM_008769838
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008768064   ⟸   XM_008769842
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_008768065   ⟸   XM_008769843
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_008768066   ⟸   XM_008769844
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_008768067   ⟸   XM_008769845
- Peptide Label: isoform X7
- Sequence:
RefSeq Acc Id: XP_008768062   ⟸   XM_008769840
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_008768061   ⟸   XM_008769839
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_017454232   ⟸   XM_017598743
- Peptide Label: isoform X9
- Sequence:
RefSeq Acc Id: XP_017454231   ⟸   XM_017598742
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: ENSRNOP00000044043   ⟸   ENSRNOT00000040543
RefSeq Acc Id: XP_038946516   ⟸   XM_039090588
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038946522   ⟸   XM_039090594
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038946519   ⟸   XM_039090591
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038946520   ⟸   XM_039090592
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038946521   ⟸   XM_039090593
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038946523   ⟸   XM_039090595
- Peptide Label: isoform X8
RefSeq Acc Id: XP_038946524   ⟸   XM_039090596
- Peptide Label: isoform X9
RefSeq Acc Id: XP_038946515   ⟸   XM_039090587
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038946525   ⟸   XM_039090597
- Peptide Label: isoform X11
RefSeq Acc Id: XP_038946518   ⟸   XM_039090590
- Peptide Label: isoform X2

Transcriptome

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

Promoters
RGD ID:13699107
Promoter ID:EPDNEW_R9625
Type:multiple initiation site
Name:Gpatch2_1
Description:G patch domain containing 2
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_6.013105,684,468 - 105,684,528EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1308865 AgrOrtholog
Ensembl Genes ENSRNOG00000002512 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000044043 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000040543 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7132530 IMAGE-MGC_LOAD
InterPro Gpatch2 UniProtKB/TrEMBL
KEGG Report rno:289362 UniProtKB/TrEMBL
MGC_CLONE MGC:94311 IMAGE-MGC_LOAD
NCBI Gene 289362 ENTREZGENE
PANTHER PTHR14195:SF4 UniProtKB/TrEMBL
PhenoGen Gpatch2 PhenoGen
UniProt F7FA15_RAT UniProtKB/TrEMBL
  Q6AY15 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-08-01 Gpatch2  G patch domain containing 2  Gpatc2  G patch domain containing 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 Gpatc2  G patch domain containing 2  Gpatc2_predicted  G patch domain containing 2 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Gpatc2_predicted  G patch domain containing 2 (predicted)      Symbol and Name status set to approved 70820 APPROVED