Gtf2ird1 (GTF2I repeat domain containing 1) - Rat Genome Database
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Gene: Gtf2ird1 (GTF2I repeat domain containing 1) Rattus norvegicus
Analyze
Symbol: Gtf2ird1
Name: GTF2I repeat domain containing 1
RGD ID: 620856
Description: Predicted to have DNA-binding transcription repressor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in negative regulation of transcription by RNA polymerase II and transition between slow and fast fiber. Predicted to localize to cytosol and nucleoplasm. Orthologous to human GTF2IRD1 (GTF2I repeat domain containing 1); INTERACTS WITH (+)-schisandrin B; 3H-1,2-dithiole-3-thione; ammonium chloride.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: general transcription factor II I repeat domain-containing 1; general transcription factor II-I repeat domain-containing protein 1; Gtf3
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Is Marker For: Strains:   DA.ACI-(Gtf2ird1-D12Rat8)/Nsi  
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21222,254,113 - 22,361,052 (+)NCBI
Rnor_6.0 Ensembl1225,264,192 - 25,371,001 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01225,264,052 - 25,370,947 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01227,273,535 - 27,380,438 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41223,319,373 - 23,426,094 (+)NCBIRGSC3.4rn4RGSC3.4
Celera1224,058,959 - 24,124,035 (+)NCBICelera
Cytogenetic Map12q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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

Biological Process

Cellular Component
cytosol  (ISO)
nucleoplasm  (ISO)
nucleus  (IBA,ISO)

References

Additional References at PubMed
PMID:10861001   PMID:19109438   PMID:22899722   PMID:32325114  


Genomics

Comparative Map Data
Gtf2ird1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21222,254,113 - 22,361,052 (+)NCBI
Rnor_6.0 Ensembl1225,264,192 - 25,371,001 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01225,264,052 - 25,370,947 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01227,273,535 - 27,380,438 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41223,319,373 - 23,426,094 (+)NCBIRGSC3.4rn4RGSC3.4
Celera1224,058,959 - 24,124,035 (+)NCBICelera
Cytogenetic Map12q12NCBI
GTF2IRD1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl774,453,790 - 74,602,605 (+)EnsemblGRCh38hg38GRCh38
GRCh38.p13 Ensembl774,453,790 - 74,602,604 (+)EnsemblGRCh38hg38GRCh38
GRCh38774,453,906 - 74,603,070 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37773,868,236 - 74,016,931 (+)NCBIGRCh37GRCh37hg19GRCh37
GRCh37773,868,120 - 74,016,931 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36773,506,056 - 73,654,853 (+)NCBINCBI36hg18NCBI36
Build 34773,312,770 - 73,461,561NCBI
Celera769,347,333 - 69,496,125 (+)NCBI
Cytogenetic Map7q11.23NCBI
HuRef769,747,281 - 69,895,926 (+)NCBIHuRef
CHM1_1774,013,188 - 74,162,021 (+)NCBICHM1_1
CRA_TCAGchr7v2773,201,192 - 73,350,003 (+)NCBI
Gtf2ird1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm395134,386,515 - 134,485,628 (-)NCBIGRCm39mm39
GRCm385134,357,661 - 134,456,867 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl5134,357,656 - 134,456,716 (-)EnsemblGRCm38mm10GRCm38
MGSCv375134,833,531 - 134,932,581 (-)NCBIGRCm37mm9NCBIm37
MGSCv365134,642,288 - 134,741,317 (-)NCBImm8
Celera5131,365,373 - 131,464,432 (-)NCBICelera
Cytogenetic Map5G2NCBI
cM Map574.55NCBI
Gtf2ird1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495545613,492,496 - 13,564,826 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495545613,494,644 - 13,564,826 (-)NCBIChiLan1.0ChiLan1.0
GTF2IRD1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1781,599,471 - 81,749,108 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl781,653,515 - 81,748,951 (+)Ensemblpanpan1.1panPan2
GTF2IRD1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl65,886,931 - 5,963,873 (-)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.165,887,757 - 5,997,627 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Gtf2ird1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049365433,435,039 - 3,483,202 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
GTF2IRD1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl311,538,243 - 11,654,789 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1311,538,183 - 11,654,795 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2311,271,681 - 11,374,731 (+)NCBISscrofa10.2Sscrofa10.2susScr3
GTF2IRD1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1288,512,006 - 8,583,110 (-)NCBI
Gtf2ird1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462474013,581,752 - 13,653,148 (-)NCBI

Position Markers
D12Got46  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01229,014,147 - 29,014,362NCBIRnor6.0
Rnor_6.01225,307,118 - 25,307,333NCBIRnor6.0
Rnor_5.01227,316,608 - 27,316,823UniSTSRnor5.0
Rnor_5.01230,964,665 - 30,964,880UniSTSRnor5.0
RGSC_v3.41223,362,298 - 23,362,514RGDRGSC3.4
RGSC_v3.41223,362,299 - 23,362,514UniSTSRGSC3.4
RGSC_v3.11223,225,514 - 23,225,729RGD
Celera1224,060,262 - 24,060,477UniSTS
RH 3.4 Map12351.3UniSTS
RH 3.4 Map12351.3RGD
RH 2.0 Map12238.9RGD
Cytogenetic Map12q12UniSTS
BE097301  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01225,359,262 - 25,359,414NCBIRnor6.0
Rnor_6.01229,066,289 - 29,066,441NCBIRnor6.0
Rnor_5.01231,016,807 - 31,016,959UniSTSRnor5.0
Rnor_5.01227,368,753 - 27,368,905UniSTSRnor5.0
RGSC_v3.41223,414,445 - 23,414,597UniSTSRGSC3.4
Celera1224,112,397 - 24,112,549UniSTS
RH 3.4 Map12347.6UniSTS
Cytogenetic Map12q12UniSTS
AW535181  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01225,321,657 - 25,321,839NCBIRnor6.0
Rnor_6.01229,028,686 - 29,028,868NCBIRnor6.0
Rnor_5.01230,979,204 - 30,979,386UniSTSRnor5.0
Rnor_5.01227,331,147 - 27,331,329UniSTSRnor5.0
RGSC_v3.41223,376,838 - 23,377,020UniSTSRGSC3.4
Celera1224,074,801 - 24,074,983UniSTS
RH 3.4 Map12349.6UniSTS
Cytogenetic Map12q12UniSTS
RH140259  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01225,288,635 - 25,288,833NCBIRnor6.0
Rnor_6.01228,995,664 - 28,995,862NCBIRnor6.0
Rnor_5.01230,946,182 - 30,946,380UniSTSRnor5.0
Rnor_5.01227,298,125 - 27,298,323UniSTSRnor5.0
RGSC_v3.41223,343,816 - 23,344,014UniSTSRGSC3.4
Celera1224,041,796 - 24,041,994UniSTS
RH 3.4 Map12349.1UniSTS
Cytogenetic Map12q12UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1581516Cm56Cardiac mass QTL 564.20.05heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)12130749723Rat
1598855Bp294Blood pressure QTL 2943.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)12136919844Rat
7387292Kidm42Kidney mass QTL 423.030.0004kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)12138334225Rat
9590086Insglur6Insulin/glucose ratio QTL 618.970.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)1215081045150810Rat
9590147Scort7Serum corticosterone level QTL 713.610.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)1215081045150810Rat
7411545Bw128Body weight QTL 1285.20.001body mass (VT:0001259)body weight gain (CMO:0000420)1215081045150810Rat
7411586Foco5Food consumption QTL 55.40.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)1215081045150810Rat
7411660Foco28Food consumption QTL 2810.90.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)1215081045150810Rat
7411595Foco9Food consumption QTL 940.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)1215081045150810Rat
8694179Bw150Body weight QTL 1502.90.001body mass (VT:0001259)body weight gain (CMO:0000420)1215081045150810Rat
2303575Insul14Insulin level QTL 144blood insulin amount (VT:0001560)blood insulin level (CMO:0000349)1249257845492578Rat
737979Pia22Pristane induced arthritis QTL 2253.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)12247568747475687Rat
634351Apr5Acute phase response QTL 56.7blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)12251344247513442Rat
2302042Pia38Pristane induced arthritis QTL 383.50.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)12251344247513442Rat
634350Apr4Acute phase response QTL 46orosomucoid 1 amount (VT:0010541)plasma orosomucoid 1 level (CMO:0001467)12421005149210051Rat
1302792Scl21Serum cholesterol level QTL 213.80.0011blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)12895459327911196Rat
7411547Bw129Body weight QTL 1290.001body mass (VT:0001259)body weight gain (CMO:0000420)6922362652716770Rat
7411588Foco6Food consumption QTL 60.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12922362652716770Rat
7411597Foco10Food consumption QTL 100.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12922362652716770Rat
7411641Foco19Food consumption QTL 1927.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12922362652716770Rat
8552918Pigfal7Plasma insulin-like growth factor 1 level QTL 7blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)12922362652716770Rat
8552964Pigfal17Plasma insulin-like growth factor 1 level QTL 173.5blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)12922362652716770Rat
8552912Pigfal6Plasma insulin-like growth factor 1 level QTL 65blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)12922363052716770Rat
10059594Kidm46Kidney mass QTL 463.790.025kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)12978983452716770Rat
2293086Iddm30Insulin dependent diabetes mellitus QTL 303.82blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)121017588931975590Rat
61331Eau2Experimental allergic uveoretinitis QTL 20.0005uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)121025689031723732Rat
1300157Rf21Renal function QTL 214.4renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)121176499537522089Rat
1331786Kidm11Kidney mass QTL 113.571kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)121312721127285590Rat
1331755Bp219Blood pressure QTL 2193.041arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)121312721131723688Rat
1331761Bp218Blood pressure QTL 2182.973arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)121312721150320041Rat
61404Bw120Body weight QTL 1205.1body mass (VT:0001259)body mass index (BMI) (CMO:0000105)121441977552716770Rat
1549829Scl48Serum cholesterol level QTL 485blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)121502198652716770Rat
61416Pia4Pristane induced arthritis QTL 48.4joint integrity trait (VT:0010548)arthritic paw count (CMO:0001460)121571460935964508Rat
61421Cia12Collagen induced arthritis QTL 124.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)121571460941291738Rat
2300186Bmd59Bone mineral density QTL 597.10.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)121590890052716770Rat
2293699Bss49Bone structure and strength QTL 495.610.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra trabecular cross-sectional area (CMO:0001692)121590890052716770Rat
631543Bp83Blood pressure QTL 835.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)121718558044098244Rat
2293684Bmd26Bone mineral density QTL 264.40.0002femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)121796086538409001Rat
1641928Alcrsp5Alcohol response QTL 5response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)121834247752716770Rat
2303569Gluco44Glucose level QTL 442blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)121834247752716770Rat
2302060Pia37Pristane induced arthritis QTL 376.10.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)121872904352716770Rat
1549902Bp269Blood pressure QTL 269arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)121875259352716770Rat
1549912Bp268Blood pressure QTL 268arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)101875259352716770Rat
2306789Ean6Experimental allergic neuritis QTL 64.9nervous system integrity trait (VT:0010566)experimental autoimmune neuritis severity score (CMO:0001528)122265070227190240Rat
737822Alc10Alcohol consumption QTL 102.2consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)122265070245946937Rat
5684888Pia42Pristane induced arthritis QTL 42joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)122265070248598906Rat
61324Eae5Experimental allergic encephalomyelitis QTL 514nervous system integrity trait (VT:0010566)percentage of study population developing relapsing-remitting experimental autoimmune encephalomyelitis during a period of time (CMO:0001402)122265070252716770Rat
1298081Cia25Collagen induced arthritis QTL 254.7joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)122265072141291738Rat
70213Niddm27Non-insulin dependent diabetes mellitus QTL 273.72blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)122287629743799153Rat
631521Pia12Pristane induced arthritis QTL 128.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)122324124626710128Rat
631560Apr1Acute phase response QTL 16.1orosomucoid 1 amount (VT:0010541)plasma orosomucoid 1 level (CMO:0001467)122490659052716770Rat


Related Rat Strains
The following Strains have been annotated to Gtf2ird1

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:14
Count of miRNA genes:14
Interacting mature miRNAs:14
Transcripts:ENSRNOT00000002010
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.


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
Low 6 60 77 51 18 51 1 3 139 64 72 17 1
Below cutoff 26 37 31 20 31 13 16 8 6 9 5 13

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001001504 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006249107 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089074 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089075 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089076 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089077 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089078 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089079 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089080 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089081 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089082 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089083 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089084 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089085 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089086 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089087 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089088 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089089 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089090 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089091 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089092 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089093 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039089094 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC087722 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC094811 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF547388 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF547389 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY115565 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473973 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DQ294702 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DQ294703 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DQ294704 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DQ294705 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ217037 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000227 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000002010   ⟹   ENSRNOP00000002010
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1225,305,823 - 25,370,780 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000079392   ⟹   ENSRNOP00000075217
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1225,264,192 - 25,370,911 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000087656   ⟹   ENSRNOP00000069637
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1225,264,400 - 25,371,001 (+)Ensembl
RefSeq Acc Id: NM_001001504   ⟹   NP_001001504
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21222,254,282 - 22,361,012 (+)NCBI
Rnor_6.01225,264,192 - 25,370,911 (+)NCBI
Rnor_5.01227,273,535 - 27,380,438 (+)NCBI
RGSC_v3.41223,319,373 - 23,426,094 (+)RGD
Celera1224,058,959 - 24,124,035 (+)RGD
Sequence:
RefSeq Acc Id: XM_006249102   ⟹   XP_006249164
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01225,264,059 - 25,370,947 (+)NCBI
Rnor_5.01227,273,535 - 27,380,438 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006249103   ⟹   XP_006249165
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01225,264,404 - 25,370,947 (+)NCBI
Rnor_5.01227,273,535 - 27,380,438 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006249107   ⟹   XP_006249169
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21222,254,227 - 22,361,045 (+)NCBI
Rnor_6.01225,264,060 - 25,370,947 (+)NCBI
Rnor_5.01227,273,535 - 27,380,438 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017598260   ⟹   XP_017453749
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01225,264,059 - 25,370,947 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017598261   ⟹   XP_017453750
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01225,264,059 - 25,370,947 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017598262   ⟹   XP_017453751
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01225,264,060 - 25,370,947 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017598263   ⟹   XP_017453752
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01225,264,060 - 25,370,947 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017598264   ⟹   XP_017453753
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01225,264,061 - 25,370,947 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017598265   ⟹   XP_017453754
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01225,264,061 - 25,370,947 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017598266   ⟹   XP_017453755
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01225,264,052 - 25,370,947 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017598267   ⟹   XP_017453756
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01225,264,055 - 25,370,947 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017598268   ⟹   XP_017453757
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01225,264,055 - 25,370,947 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039089074   ⟹   XP_038945002
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21222,254,113 - 22,361,052 (+)NCBI
RefSeq Acc Id: XM_039089075   ⟹   XP_038945003
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21222,254,564 - 22,361,052 (+)NCBI
RefSeq Acc Id: XM_039089076   ⟹   XP_038945004
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21222,282,837 - 22,361,052 (+)NCBI
RefSeq Acc Id: XM_039089077   ⟹   XP_038945005
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21222,284,086 - 22,361,052 (+)NCBI
RefSeq Acc Id: XM_039089078   ⟹   XP_038945006
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21222,295,915 - 22,361,052 (+)NCBI
RefSeq Acc Id: XM_039089079   ⟹   XP_038945007
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21222,295,915 - 22,361,052 (+)NCBI
RefSeq Acc Id: XM_039089080   ⟹   XP_038945008
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21222,295,915 - 22,361,052 (+)NCBI
RefSeq Acc Id: XM_039089081   ⟹   XP_038945009
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21222,295,915 - 22,361,052 (+)NCBI
RefSeq Acc Id: XM_039089082   ⟹   XP_038945010
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21222,295,915 - 22,361,052 (+)NCBI
RefSeq Acc Id: XM_039089083   ⟹   XP_038945011
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21222,295,915 - 22,361,052 (+)NCBI
RefSeq Acc Id: XM_039089084   ⟹   XP_038945012
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21222,295,915 - 22,361,052 (+)NCBI
RefSeq Acc Id: XM_039089085   ⟹   XP_038945013
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21222,295,915 - 22,359,935 (+)NCBI
RefSeq Acc Id: XM_039089086   ⟹   XP_038945014
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21222,295,915 - 22,361,052 (+)NCBI
RefSeq Acc Id: XM_039089087   ⟹   XP_038945015
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21222,295,915 - 22,361,052 (+)NCBI
RefSeq Acc Id: XM_039089088   ⟹   XP_038945016
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21222,295,915 - 22,361,052 (+)NCBI
RefSeq Acc Id: XM_039089089   ⟹   XP_038945017
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21222,295,915 - 22,361,052 (+)NCBI
RefSeq Acc Id: XM_039089090   ⟹   XP_038945018
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21222,295,915 - 22,359,935 (+)NCBI
RefSeq Acc Id: XM_039089091   ⟹   XP_038945019
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21222,295,915 - 22,359,935 (+)NCBI
RefSeq Acc Id: XM_039089092   ⟹   XP_038945020
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21222,295,915 - 22,361,052 (+)NCBI
RefSeq Acc Id: XM_039089093   ⟹   XP_038945021
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21222,302,301 - 22,361,052 (+)NCBI
RefSeq Acc Id: XM_039089094   ⟹   XP_038945022
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21222,308,546 - 22,361,052 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001001504 (Get FASTA)   NCBI Sequence Viewer  
  XP_006249169 (Get FASTA)   NCBI Sequence Viewer  
  XP_038945002 (Get FASTA)   NCBI Sequence Viewer  
  XP_038945003 (Get FASTA)   NCBI Sequence Viewer  
  XP_038945004 (Get FASTA)   NCBI Sequence Viewer  
  XP_038945005 (Get FASTA)   NCBI Sequence Viewer  
  XP_038945006 (Get FASTA)   NCBI Sequence Viewer  
  XP_038945007 (Get FASTA)   NCBI Sequence Viewer  
  XP_038945008 (Get FASTA)   NCBI Sequence Viewer  
  XP_038945009 (Get FASTA)   NCBI Sequence Viewer  
  XP_038945010 (Get FASTA)   NCBI Sequence Viewer  
  XP_038945011 (Get FASTA)   NCBI Sequence Viewer  
  XP_038945012 (Get FASTA)   NCBI Sequence Viewer  
  XP_038945013 (Get FASTA)   NCBI Sequence Viewer  
  XP_038945014 (Get FASTA)   NCBI Sequence Viewer  
  XP_038945015 (Get FASTA)   NCBI Sequence Viewer  
  XP_038945016 (Get FASTA)   NCBI Sequence Viewer  
  XP_038945017 (Get FASTA)   NCBI Sequence Viewer  
  XP_038945018 (Get FASTA)   NCBI Sequence Viewer  
  XP_038945019 (Get FASTA)   NCBI Sequence Viewer  
  XP_038945020 (Get FASTA)   NCBI Sequence Viewer  
  XP_038945021 (Get FASTA)   NCBI Sequence Viewer  
  XP_038945022 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAM63551 (Get FASTA)   NCBI Sequence Viewer  
  AAO32676 (Get FASTA)   NCBI Sequence Viewer  
  AAO32677 (Get FASTA)   NCBI Sequence Viewer  
  ABB88418 (Get FASTA)   NCBI Sequence Viewer  
  ABB88419 (Get FASTA)   NCBI Sequence Viewer  
  ABB88420 (Get FASTA)   NCBI Sequence Viewer  
  ABB88421 (Get FASTA)   NCBI Sequence Viewer  
  EDM13432 (Get FASTA)   NCBI Sequence Viewer  
  EDM13433 (Get FASTA)   NCBI Sequence Viewer  
  EDM13435 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001001504   ⟸   NM_001001504
- UniProtKB: Q80ST5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006249164   ⟸   XM_006249102
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006249169   ⟸   XM_006249107
- Peptide Label: isoform X9
- UniProtKB: A0A0G2JVV8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006249165   ⟸   XM_006249103
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017453755   ⟸   XM_017598266
- Peptide Label: isoform X9
- Sequence:
RefSeq Acc Id: XP_017453757   ⟸   XM_017598268
- Peptide Label: isoform X11
- Sequence:
RefSeq Acc Id: XP_017453756   ⟸   XM_017598267
- Peptide Label: isoform X10
- Sequence:
RefSeq Acc Id: XP_017453749   ⟸   XM_017598260
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_017453750   ⟸   XM_017598261
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_017453751   ⟸   XM_017598262
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_017453752   ⟸   XM_017598263
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_017453753   ⟸   XM_017598264
- Peptide Label: isoform X7
- Sequence:
RefSeq Acc Id: XP_017453754   ⟸   XM_017598265
- Peptide Label: isoform X8
- Sequence:
RefSeq Acc Id: ENSRNOP00000075217   ⟸   ENSRNOT00000079392
RefSeq Acc Id: ENSRNOP00000069637   ⟸   ENSRNOT00000087656
RefSeq Acc Id: ENSRNOP00000002010   ⟸   ENSRNOT00000002010
RefSeq Acc Id: XP_038945002   ⟸   XM_039089074
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038945003   ⟸   XM_039089075
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038945004   ⟸   XM_039089076
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038945005   ⟸   XM_039089077
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038945010   ⟸   XM_039089082
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038945012   ⟸   XM_039089084
- Peptide Label: isoform X8
RefSeq Acc Id: XP_038945017   ⟸   XM_039089089
- Peptide Label: isoform X14
RefSeq Acc Id: XP_038945007   ⟸   XM_039089079
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038945009   ⟸   XM_039089081
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038945014   ⟸   XM_039089086
- Peptide Label: isoform X11
RefSeq Acc Id: XP_038945006   ⟸   XM_039089078
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038945020   ⟸   XM_039089092
- Peptide Label: isoform X17
RefSeq Acc Id: XP_038945011   ⟸   XM_039089083
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038945015   ⟸   XM_039089087
- Peptide Label: isoform X12
RefSeq Acc Id: XP_038945008   ⟸   XM_039089080
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038945016   ⟸   XM_039089088
- Peptide Label: isoform X13
RefSeq Acc Id: XP_038945018   ⟸   XM_039089090
- Peptide Label: isoform X15
RefSeq Acc Id: XP_038945019   ⟸   XM_039089091
- Peptide Label: isoform X16
RefSeq Acc Id: XP_038945013   ⟸   XM_039089085
- Peptide Label: isoform X10
RefSeq Acc Id: XP_038945021   ⟸   XM_039089093
- Peptide Label: isoform X18
RefSeq Acc Id: XP_038945022   ⟸   XM_039089094
- Peptide Label: isoform X19

Transcriptome

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

Promoters
RGD ID:13698571
Promoter ID:EPDNEW_R9096
Type:initiation region
Name:Gtf2ird1_1
Description:GTF2I repeat domain containing 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_6.01225,264,121 - 25,264,181EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/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)
ACI/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
ACI/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
BBDP/Wor (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
BN/SsN (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
Buf/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
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)
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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620856 AgrOrtholog
Ensembl Genes ENSRNOG00000001478 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOG00000050193 UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000002010 UniProtKB/TrEMBL
  ENSRNOP00000069637 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000073591 UniProtKB/TrEMBL
  ENSRNOP00000075217 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000002010 UniProtKB/TrEMBL
  ENSRNOT00000079392 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000085696 UniProtKB/TrEMBL
  ENSRNOT00000087656 UniProtKB/TrEMBL
Gene3D-CATH 3.90.1460.10 UniProtKB/TrEMBL
InterPro GTF2I UniProtKB/TrEMBL
  GTF2I-like_rpt_sf UniProtKB/TrEMBL
  TF_II-I UniProtKB/TrEMBL
KEGG Report rno:246770 UniProtKB/TrEMBL
NCBI Gene 246770 ENTREZGENE
Pfam GTF2I UniProtKB/TrEMBL
PhenoGen Gtf2ird1 PhenoGen
PIRSF TF_II-I UniProtKB/TrEMBL
PROSITE GTF2I UniProtKB/TrEMBL
Superfamily-SCOP SSF117773 UniProtKB/TrEMBL
UniProt A0A0G2JVV8 ENTREZGENE, UniProtKB/TrEMBL
  A0A0G2K5X2_RAT UniProtKB/TrEMBL
  Q2V6F4_RAT UniProtKB/TrEMBL
  Q2V6F6_RAT UniProtKB/TrEMBL
  Q80ST5 ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary F1M710 UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2009-02-26 Gtf2ird1  GTF2I repeat domain containing 1  Gtf2ird1  general transcription factor II I repeat domain-containing 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 Gtf2ird1  general transcription factor II I repeat domain-containing 1      Symbol and Name status set to approved 1299863 APPROVED
2002-08-07 Gtf2ird1  general transcription factor II I repeat domain-containing 1      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_disease human homolog may be associated with the Williams-Beuren microdeletion syndrome 708335