Gtf2ird2 (GTF2I repeat domain containing 2) - Rat Genome Database

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Gene: Gtf2ird2 (GTF2I repeat domain containing 2) Rattus norvegicus
Analyze
Symbol: Gtf2ird2
Name: GTF2I repeat domain containing 2
RGD ID: 1307435
Description: Predicted to act upstream of or within transition between fast and slow fiber. Predicted to be located in nucleus. Orthologous to human GTF2IRD2B (GTF2I repeat domain containing 2B); INTERACTS WITH 6-propyl-2-thiouracil; amitrole; amphetamine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: general transcription factor II I repeat domain-containing 2; general transcription factor II-I repeat domain-containing protein 2B; LOC288606; RGD1307435; RGD1566086; similar to gtf2ird2
RGD Orthologs
Human
Mouse
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21222,497,767 - 22,536,455 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1222,498,091 - 22,536,263 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1223,640,806 - 23,677,363 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01224,251,903 - 24,288,464 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01223,317,370 - 23,354,011 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01225,509,059 - 25,555,554 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1225,509,653 - 25,546,200 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01227,517,572 - 27,563,063 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41223,650,480 - 23,681,954 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11223,527,583 - 23,545,170 (-)NCBI
Celera1224,259,281 - 24,310,588 (-)NCBICelera
Cytogenetic Map12q12NCBI
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
nucleus  (ISO)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:22899722  


Genomics

Comparative Map Data
Gtf2ird2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21222,497,767 - 22,536,455 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1222,498,091 - 22,536,263 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1223,640,806 - 23,677,363 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01224,251,903 - 24,288,464 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01223,317,370 - 23,354,011 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01225,509,059 - 25,555,554 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1225,509,653 - 25,546,200 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01227,517,572 - 27,563,063 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41223,650,480 - 23,681,954 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11223,527,583 - 23,545,170 (-)NCBI
Celera1224,259,281 - 24,310,588 (-)NCBICelera
Cytogenetic Map12q12NCBI
GTF2IRD2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38774,796,151 - 74,851,605 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl774,796,151 - 74,851,605 (-)EnsemblGRCh38hg38GRCh38
GRCh37774,210,490 - 74,267,901 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36773,848,420 - 73,905,777 (-)NCBINCBI36Build 36hg18NCBI36
Cytogenetic Map7q11.23NCBI
CHM1_1774,355,560 - 74,410,992 (-)NCBICHM1_1
T2T-CHM13v2.0775,998,467 - 76,053,913 (-)NCBIT2T-CHM13v2.0
CRA_TCAGchr7v2773,543,547 - 73,600,936NCBI
Gtf2ird2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm395134,211,629 - 134,246,988 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl5134,212,858 - 134,253,209 (+)EnsemblGRCm39 Ensembl
GRCm385134,182,557 - 134,218,146 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl5134,184,019 - 134,224,355 (+)EnsemblGRCm38mm10GRCm38
MGSCv375134,659,908 - 134,694,013 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv365134,468,665 - 134,502,770 (+)NCBIMGSCv36mm8
Celera5131,186,642 - 131,221,475 (+)NCBICelera
Cytogenetic Map5G2NCBI
cM Map574.45NCBI

Variants

.
Variants in Gtf2ird2
421 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:94
Count of miRNA genes:84
Interacting mature miRNAs:86
Transcripts:ENSRNOT00000002030
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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
10755457Coatc14Coat color QTL 140.01759coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)12122591684Rat
6893681Bw109Body weight QTL 1092.30.004body mass (VT:0001259)body weight (CMO:0000012)12123297788Rat
1581516Cm56Cardiac mass QTL 564.20.05heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)12129333307Rat
1598855Bp294Blood pressure QTL 2943.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)12134851688Rat
7411660Foco28Food consumption QTL 2810.90.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12142110980Rat
9590086Insglur6Insulin/glucose ratio QTL 618.970.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)12142110980Rat
8694179Bw150Body weight QTL 1502.90.001body mass (VT:0001259)body weight gain (CMO:0000420)12142110980Rat
7411586Foco5Food consumption QTL 55.40.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12142110980Rat
7411595Foco9Food consumption QTL 940.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12142110980Rat
7411545Bw128Body weight QTL 1285.20.001body mass (VT:0001259)body weight gain (CMO:0000420)12142110980Rat
9590147Scort7Serum corticosterone level QTL 713.610.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)12142110980Rat
2303575Insul14Insulin level QTL 144blood insulin amount (VT:0001560)blood insulin level (CMO:0000349)12142450532Rat
737979Pia22Pristane induced arthritis QTL 2253.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)12144465750Rat
634351Apr5Acute phase response QTL 56.7blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)12144503507Rat
2302042Pia38Pristane induced arthritis QTL 383.50.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)12144503507Rat
634350Apr4Acute phase response QTL 46orosomucoid 1 amount (VT:0010541)plasma orosomucoid 1 level (CMO:0001467)12117200546172005Rat
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)12556449546669029Rat
7411547Bw129Body weight QTL 1290.001body mass (VT:0001259)body weight gain (CMO:0000420)6556449546669029Rat
7411597Foco10Food consumption QTL 100.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12556449546669029Rat
7411641Foco19Food consumption QTL 1927.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12556449546669029Rat
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)12556449546669029Rat
7411588Foco6Food consumption QTL 60.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12556449546669029Rat
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)12556449846669029Rat
10059594Kidm46Kidney mass QTL 463.790.025kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)12610757946669029Rat
1302792Scl21Serum cholesterol level QTL 213.80.0011blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)12719673046669029Rat
2293086Iddm30Insulin dependent diabetes mellitus QTL 303.82blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)12844949028302290Rat
61331Eau2Experimental allergic uveoretinitis QTL 20.0005uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)12852542328064601Rat
1300157Rf21Renal function QTL 214.4renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)12931821632103380Rat
1549829Scl48Serum cholesterol level QTL 485blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)12960327746669029Rat
2293699Bss49Bone structure and strength QTL 495.610.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra trabecular cross-sectional area (CMO:0001692)121047413746669029Rat
2300186Bmd59Bone mineral density QTL 597.10.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)121047413746669029Rat
1331786Kidm11Kidney mass QTL 113.571kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)121107382524234895Rat
1331755Bp219Blood pressure QTL 2193.041arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)121107382528064557Rat
1331761Bp218Blood pressure QTL 2182.973arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)121107382545055165Rat
61404Bw120Body weight QTL 1205.1body mass (VT:0001259)body mass index (BMI) (CMO:0000105)121235161946669029Rat
1641928Alcrsp5Alcohol response QTL 5response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)121281238546669029Rat
2303569Gluco44Glucose level QTL 442blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)121281238546669029Rat
1549902Bp269Blood pressure QTL 269arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)121318273646669029Rat
1549912Bp268Blood pressure QTL 268arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)101318273646669029Rat
2302060Pia37Pristane induced arthritis QTL 376.10.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)121319815746669029Rat
61416Pia4Pristane induced arthritis QTL 48.4joint integrity trait (VT:0010548)arthritic paw count (CMO:0001460)121363552330827399Rat
61421Cia12Collagen induced arthritis QTL 124.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)121363552335682913Rat
631543Bp83Blood pressure QTL 835.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)121555082638478808Rat
2293684Bmd26Bone mineral density QTL 264.40.0002femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)121587265332974238Rat
631560Apr1Acute phase response QTL 16.1orosomucoid 1 amount (VT:0010541)plasma orosomucoid 1 level (CMO:0001467)121914436246669029Rat
2306789Ean6Experimental allergic neuritis QTL 64.9nervous system integrity trait (VT:0010566)experimental autoimmune neuritis severity score (CMO:0001528)121961087024139202Rat
737822Alc10Alcohol consumption QTL 102.2consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)121961087040218516Rat
5684888Pia42Pristane induced arthritis QTL 42joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)121961087042828880Rat
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)121961087046669029Rat
1298081Cia25Collagen induced arthritis QTL 254.7joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)121961088935682913Rat
70213Niddm27Non-insulin dependent diabetes mellitus QTL 273.72blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)121983578938193007Rat
631521Pia12Pristane induced arthritis QTL 128.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)122025941723672083Rat
7411643Foco20Food consumption QTL 200.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)122032881946669029Rat

Markers in Region
RH135134  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21222,519,890 - 22,520,110 (+)MAPPERmRatBN7.2
Rnor_6.01225,531,250 - 25,531,469NCBIRnor6.0
Rnor_5.01227,539,228 - 27,539,447UniSTSRnor5.0
RGSC_v3.41223,672,306 - 23,672,525UniSTSRGSC3.4
Celera1224,279,794 - 24,280,013UniSTS
RH 3.4 Map12348.2UniSTS
Cytogenetic Map12q12UniSTS


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 2 2 2 2 2 64 20 29
Low 3 41 55 39 17 39 8 11 10 15 12 11 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000002030
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1222,498,213 - 22,528,005 (-)Ensembl
Rnor_6.0 Ensembl1225,509,653 - 25,546,200 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000075846
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1225,513,105 - 25,516,941 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000076298
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1225,523,542 - 25,533,843 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000113330   ⟹   ENSRNOP00000088990
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1222,498,091 - 22,536,263 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000115001   ⟹   ENSRNOP00000079418
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1222,498,213 - 22,536,263 (-)Ensembl
RefSeq Acc Id: NM_001393697   ⟹   NP_001380626
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21222,497,767 - 22,536,455 (-)NCBI
Reference Protein Sequences
RefSeq Acc Id: ENSRNOP00000079418   ⟸   ENSRNOT00000115001
RefSeq Acc Id: ENSRNOP00000088990   ⟸   ENSRNOT00000113330
RefSeq Acc Id: NP_001380626   ⟸   NM_001393697
- UniProtKB: A0A8I6A695 (UniProtKB/TrEMBL)
Protein Domains
DUF4371   SPIN-DOC-like zinc-finger

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1307435 AgrOrtholog
BioCyc Gene G2FUF-19568 BioCyc
Ensembl Genes ENSRNOG00000001482 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000002030.8 UniProtKB/TrEMBL
  ENSRNOT00000113330 ENTREZGENE
  ENSRNOT00000113330.1 UniProtKB/TrEMBL
  ENSRNOT00000115001.1 UniProtKB/TrEMBL
Gene3D-CATH 3.90.1460.10 UniProtKB/TrEMBL
InterPro DUF4371 UniProtKB/TrEMBL
  GTF2I UniProtKB/TrEMBL
  GTF2I-like_rpt_sf UniProtKB/TrEMBL
  GTF2IRD2 UniProtKB/TrEMBL
  SPIN-DOC_Znf-C2H2 UniProtKB/TrEMBL
NCBI Gene 288606 ENTREZGENE
PANTHER GENERAL TRANSCRIPTION FACTOR II-I REPEAT DOMAIN-CONTAINING PROTEIN 2A-RELATED UniProtKB/TrEMBL
  PTHR47831 UniProtKB/TrEMBL
Pfam DUF4371 UniProtKB/TrEMBL
  GTF2I UniProtKB/TrEMBL
  zf-C2H2_12 UniProtKB/TrEMBL
PhenoGen Gtf2ird2 PhenoGen
PROSITE GTF2I UniProtKB/TrEMBL
RatGTEx ENSRNOG00000001482 RatGTEx
Superfamily-SCOP SSF117773 UniProtKB/TrEMBL
UniProt A0A8I5ZN25_RAT UniProtKB/TrEMBL
  A0A8I6A695 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6A6I7_RAT UniProtKB/TrEMBL
  Q2V6E4_RAT UniProtKB/TrEMBL
  Q2V6E6_RAT UniProtKB/TrEMBL
  Q2V6E7_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-05-24 Gtf2ird2  GTF2I repeat domain containing 2  RGD1566086  similar to gtf2ird2  Data merged from RGD:1566086 1643240 APPROVED
2008-04-30 RGD1566086  similar to gtf2ird2   RGD1566086_predicted  similar to gtf2ird2 (predicted)  'predicted' is removed 2292626 APPROVED
2008-03-07 Gtf2ird2  GTF2I repeat domain containing 2  RGD1307435_predicted  similar to gtf2ird2 (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-07 RGD1566086_predicted  similar to gtf2ird2 (predicted)  LOC360795  similar to gtf2ird2  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC360795  similar to gtf2ird2      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-01-20 RGD1307435_predicted  similar to gtf2ird2 (predicted)  LOC288606_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC288606_predicted  similar to gtf2ird2 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL