Gtf2a2 (general transcription factor 2A subunit 2) - Rat Genome Database

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Gene: Gtf2a2 (general transcription factor 2A subunit 2) Rattus norvegicus
Analyze
Symbol: Gtf2a2
Name: general transcription factor 2A subunit 2
RGD ID: 620720
Description: Predicted to enable several functions, including RNA polymerase II general transcription initiation factor activity; general transcription initiation factor binding activity; and protein dimerization activity. Involved in positive regulation of transcription by RNA polymerase II. Predicted to be located in cell junction and nucleoplasm. Predicted to be part of transcription factor TFIIA complex and transcription factor TFIID complex. Orthologous to human GTF2A2 (general transcription factor IIA subunit 2); PARTICIPATES IN RNA polymerase II transcription initiation pathway; INTERACTS WITH 4-tert-Octylphenol; ammonium chloride; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: general transcription factor IIa 2; general transcription factor IIA subunit 2; general transcription factor IIA, 2; general transcription factor IIa, 2 (12kD subunit); general transcription factor2A subunit 2; MGC188808; TFIIA-gamma; transcription initiation factor IIA gamma chain; transcription initiation factor IIA subunit 2
RGD Orthologs
Human
Mouse
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2870,662,395 - 70,675,576 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl870,662,428 - 70,675,569 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1067,628,292 - 67,628,621 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01067,133,660 - 67,133,989 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0872,311,551 - 72,320,417 (+)NCBIRnor_WKY
Rnor_6.0876,422,341 - 76,435,587 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl876,422,359 - 76,435,473 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0876,640,681 - 76,653,942 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4874,447,866 - 74,456,735 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1874,466,919 - 74,475,789 (+)NCBI
Celera871,051,449 - 71,060,316 (-)NCBICelera
Cytogenetic Map8q24NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. Structural insights into transcription initiation by RNA polymerase II. Grunberg S and Hahn S, Trends Biochem Sci. 2013 Dec;38(12):603-11. doi: 10.1016/j.tibs.2013.09.002. Epub 2013 Oct 11.
4. TFIIAalpha/beta-like factor is encoded by a germ cell-specific gene whose expression is up-regulated with other general transcription factors during spermatogenesis in the mouse. Han SY, etal., Biol Reprod 2001 Feb;64(2):507-17.
5. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
6. GOA pipeline RGD automated data pipeline
7. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
8. Comprehensive gene review and curation RGD comprehensive gene curation
9. General transcription factor IIA-gamma increases osteoblast-specific osteocalcin gene expression via activating transcription factor 4 and runt-related transcription factor 2. Yu S, etal., J Biol Chem. 2008 Feb 29;283(9):5542-53. doi: 10.1074/jbc.M705653200. Epub 2008 Jan 2.
Additional References at PubMed
PMID:1302244   PMID:7724559   PMID:7958899   PMID:7958900   PMID:8626665   PMID:12477932   PMID:19235719   PMID:27193682  


Genomics

Comparative Map Data
Gtf2a2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2870,662,395 - 70,675,576 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl870,662,428 - 70,675,569 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1067,628,292 - 67,628,621 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01067,133,660 - 67,133,989 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0872,311,551 - 72,320,417 (+)NCBIRnor_WKY
Rnor_6.0876,422,341 - 76,435,587 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl876,422,359 - 76,435,473 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0876,640,681 - 76,653,942 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4874,447,866 - 74,456,735 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1874,466,919 - 74,475,789 (+)NCBI
Celera871,051,449 - 71,060,316 (-)NCBICelera
Cytogenetic Map8q24NCBI
GTF2A2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381559,638,062 - 59,657,515 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1559,638,062 - 59,657,541 (-)EnsemblGRCh38hg38GRCh38
GRCh371559,930,261 - 59,949,714 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361557,718,358 - 57,736,987 (-)NCBINCBI36Build 36hg18NCBI36
Build 341557,718,357 - 57,736,985NCBI
Celera1536,818,236 - 36,837,689 (-)NCBICelera
Cytogenetic Map15q22.2NCBI
HuRef1536,752,262 - 36,771,682 (-)NCBIHuRef
CHM1_11560,048,219 - 60,067,695 (-)NCBICHM1_1
T2T-CHM13v2.01557,439,769 - 57,459,225 (-)NCBIT2T-CHM13v2.0
Gtf2a2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39969,919,830 - 69,930,148 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl969,919,832 - 69,930,148 (+)EnsemblGRCm39 Ensembl
GRCm38970,012,548 - 70,022,866 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl970,012,550 - 70,022,866 (+)EnsemblGRCm38mm10GRCm38
MGSCv37969,860,357 - 69,870,654 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36969,811,714 - 69,822,011 (+)NCBIMGSCv36mm8
Celera967,229,001 - 67,239,301 (+)NCBICelera
Cytogenetic Map9DNCBI
GTF2A2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1112,390,594 - 112,402,265 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11112,371,276 - 112,399,541 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21124,288,264 - 124,316,522 (+)NCBISscrofa10.2Sscrofa10.2susScr3
GTF2A2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12623,850,483 - 23,868,477 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_023666048117,459,828 - 117,477,971 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Gtf2a2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462478112,498,702 - 12,512,810 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462478112,498,057 - 12,510,701 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Position Markers
RH128620  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2870,675,419 - 70,675,611 (+)MAPPERmRatBN7.2
Rnor_6.0876,435,325 - 76,435,516NCBIRnor6.0
Rnor_5.0876,640,752 - 76,640,943UniSTSRnor5.0
RGSC_v3.4874,456,857 - 74,457,048UniSTSRGSC3.4
Celera871,051,136 - 71,051,327UniSTS
Cytogenetic Map8q24UniSTS
BF390041  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2870,671,233 - 70,671,355 (+)MAPPERmRatBN7.2
Rnor_6.0876,431,139 - 76,431,260NCBIRnor6.0
Rnor_5.0876,645,008 - 76,645,129UniSTSRnor5.0
RGSC_v3.4874,452,671 - 74,452,792UniSTSRGSC3.4
Celera871,055,392 - 71,055,513UniSTS
Cytogenetic Map8q24UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1581557Eae16Experimental allergic encephalomyelitis QTL 163.8nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)88462195110921472Rat
631650Stl6Serum triglyceride level QTL 640.0019blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)810378157112202585Rat
631271Lecl1Lens clarity QTL 10.001lens clarity trait (VT:0001304)age of onset/diagnosis of cataract (CMO:0001584)81898416884531599Rat
731182Uae24Urinary albumin excretion QTL 246.4urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)81933115293965294Rat
2303564Gluco43Glucose level QTL 433blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)82613018771130187Rat
2303572Insul13Insulin level QTL 132blood insulin amount (VT:0001560)blood insulin level (CMO:0000349)82613018771130187Rat
1358892Kidm26Kidney mass QTL 263.69kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)82720571599103503Rat
1358896Bp262Blood pressure QTL 2622.89arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)82720571599103503Rat
1358907Cm40Cardiac mass QTL 401.89heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)82720571599103503Rat
1300146Rf17Renal function QTL 172.9renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)82824291273242912Rat
8662823Vetf5Vascular elastic tissue fragility QTL 51.9artery integrity trait (VT:0010639)patent ductus arteriosus score (CMO:0002566)82824291299525068Rat
1549908Neudeg1Neurodegradation QTL 15.50nervous system integrity trait (VT:0010566)logarithm of the ratio of the lesioned side motor neuron count to contralateral side motor neuron count (CMO:0001986)83018886794457446Rat
2313046Bss78Bone structure and strength QTL 783.50.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)83084815482460899Rat
2313057Bss76Bone structure and strength QTL 7630.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)83084815482460899Rat
2313067Bss77Bone structure and strength QTL 773.10.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)83084815482460899Rat
2313088Bss75Bone structure and strength QTL 753.10.0001body length (VT:0001256)body length, nose to rump (CMO:0000079)83084815482460899Rat
1578755Pur5Proteinuria QTL 53.30.0001total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)830848154101699754Rat
1578765Klgr1Kidney lesion grade QTL 13.30.0001kidney morphology trait (VT:0002135)organ lesion measurement (CMO:0000677)830848154101699754Rat
1578769Uae31Urinary albumin excretion QTL 313.30.001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)830848154101699754Rat
2316950Scl66Serum cholesterol level QTL 664.1blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)830848259105647037Rat
1298065Scl16Serum cholesterol level QTL 163.8blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)83085640475856404Rat
1582222Epfw2Epididymal fat weight QTL 23.20.0005epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)83173772976737729Rat
61358Bp39Blood pressure QTL 392arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)83555193880551938Rat
61464Niddm11Non-insulin dependent diabetes mellitus QTL 113.10.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)83558203280582032Rat
1331838Niddm61Non-insulin dependent diabetes mellitus QTL 613.530.0004blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)83646953599083736Rat
737824Hcar10Hepatocarcinoma resistance QTL 102.9liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)84071306682925667Rat
1358906Bp253Blood pressure QTL 25340.0004arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)84071306693965294Rat
1554321Bmd3Bone mineral density QTL 37.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)840952565123900184Rat
1331769Rf39Renal function QTL 393.871urine output (VT:0003620)timed urine volume (CMO:0000260)84186687675097878Rat
1298079Activ2Activity QTL 29.50.000001voluntary movement trait (VT:0003491)rearing measurement (CMO:0001515)84186687686866876Rat
70161Bp62Blood pressure QTL 622.90.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)84269268490165460Rat
12879882Am8Aortic mass QTL 80.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)84329616998968765Rat
12879878Bw183Body weight QTL 1830.001body mass (VT:0001259)body weight (CMO:0000012)84329616998968765Rat
12879879Cm99Cardiac mass QTL 990.001heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)84329616998968765Rat
12879880Cm100Cardiac mass QTL 1000.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)84329616998968765Rat
12879881Cm101Cardiac mass QTL 1010.001heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)84329616998968765Rat
12879883Kidm65Kidney mass QTL 650.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)84329616998968765Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)846531639119088624Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)846531639119088624Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)absolute change in systolic blood pressure (CMO:0000607)846531639119088624Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)846531639119088624Rat
1331837Bw23Body weight QTL 234.190.00007body mass (VT:0001259)body weight (CMO:0000012)84653172299083736Rat
2303570Gluco48Glucose level QTL 482blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)84980583194805831Rat
2313086Bss60Bone structure and strength QTL 604.10.0001tibia length (VT:0004357)tibia length (CMO:0000450)85009524982460899Rat
4889938Bss89Bone structure and strength QTL 893.8tibia size trait (VT:0100001)tibia cortical bone volume (CMO:0001725)85009524982460899Rat
5684973Bss100Bone structure and strength QTL 1004.7tibia area (VT:1000281)tibia area measurement (CMO:0001382)85009524982460899Rat
1358912Bw51Body weight QTL 512.95body mass (VT:0001259)body weight (CMO:0000012)851351728107062046Rat
10402857Bp380Blood pressure QTL 3800.95arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)85396876598968765Rat
2301402Bp316Blood pressure QTL 3160.005arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)85396876598968765Rat
2293697Bmd39Bone mineral density QTL 39femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)85404374498968765Rat
1582243Bw66Body weight QTL 663.40.0048body mass (VT:0001259)body weight (CMO:0000012)85423764485365202Rat
1582254Kidm31Kidney mass QTL 313kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)85423764485365202Rat
631664Hcar3Hepatocarcinoma resistance QTL 32.90.0005liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)85423764499103503Rat
1300177Cm2Cardiac mass QTL 23.65heart mass (VT:0007028)heart weight (CMO:0000017)854259986100382532Rat
2303171Bp331Blood pressure QTL 3315.570.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)861290298119084929Rat
631653Bp125Blood pressure QTL 1253.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)866142385111142385Rat
631210Bw3Body weight QTL35.9mesenteric fat pad mass (VT:0010427)mesenteric fat pad weight to body weight ratio (CMO:0000654)869349194112783834Rat
1300171Bp184Blood pressure QTL 1843.66arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)870513503118219066Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:170
Count of miRNA genes:124
Interacting mature miRNAs:134
Transcripts:ENSRNOT00000014706
Prediction methods:Microtar, Miranda, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


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 3 43 57 41 19 41 8 11 74 35 41 11 8
Low
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: NM_053345   ⟹   NP_445797
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2870,666,429 - 70,675,298 (+)NCBI
Rnor_6.0876,426,335 - 76,435,203 (+)NCBI
Rnor_5.0876,640,681 - 76,653,942 (-)NCBI
RGSC_v3.4874,447,866 - 74,456,735 (+)RGD
Celera871,051,449 - 71,060,316 (-)RGD
Sequence:
RefSeq Acc Id: XM_006243380   ⟹   XP_006243442
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2870,662,395 - 70,675,576 (+)NCBI
Rnor_6.0876,422,341 - 76,435,587 (+)NCBI
Rnor_5.0876,640,681 - 76,653,942 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039082206   ⟹   XP_038938134
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2870,665,433 - 70,675,576 (+)NCBI
RefSeq Acc Id: XR_356413
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2870,662,395 - 70,675,576 (+)NCBI
Rnor_6.0876,422,354 - 76,435,587 (+)NCBI
Rnor_5.0876,640,681 - 76,653,942 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_445797   ⟸   NM_053345
- UniProtKB: O08950 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006243442   ⟸   XM_006243380
- Peptide Label: isoform X1
- UniProtKB: O08950 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_038938134   ⟸   XM_039082206
- Peptide Label: isoform X1
- UniProtKB: O08950 (UniProtKB/Swiss-Prot)
Protein Domains
TFIIA_gamma_C   TFIIA_gamma_N

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-O08950-F1-model_v2 AlphaFold O08950 1-109 view protein structure

Transcriptome

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

Promoters
RGD ID:13696105
Promoter ID:EPDNEW_R6627
Type:multiple initiation site
Name:LOC103695118_1
Description:transcription initiation factor IIA subunit 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_6.0876,422,353 - 76,422,413EPDNEW

Strain Variation

Strain Sequence Variants (mRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Damaging Variants


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
8 76426342 76426343 A G snv WN/N (MCW), Buf/N (MCW), MR/N (MCW), M520/N (MCW), ACI/N (MCW)
8 76427630 76427631 A T snv M520/N (MCW)
8 76427640 76427641 A C snv F344/NRrrc (MCW), BN/SsN (MCW), ACI/N (MCW), M520/N (MCW)


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
8 76649881 76649882 C T snv ACI/EurMcwi (MCW), FHL/EurMcwi (MCW)
8 76649926 76649927 T C snv ACI/EurMcwi (MCW), FHL/EurMcwi (MCW)


Assembly: RGSC_v3.4

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
8 74447873 74447874 A G snv WN/N (KNAW), MR/N (KNAW), M520/N (KNAW), LE/Stm (KNAW), FHL/EurMcwi (MCW), ACI/N (KNAW), SS/JrHsdMcwi (MCW), ACI/EurMcwi (MCW), FHH/EurMcwi (MCW), BUF/N (KNAW)
8 74447918 74447919 G A snv ACI/EurMcwi (MCW), FHL/EurMcwi (MCW)
8 74449130 74449131 A G snv LCR/2Mco (UMich), HCR/2Mco (UMich), LCR/1Mco (UMich), HCR/1Mco (UMich), FHL/EurMcwi (MCW), ACI/EurMcwi (MCW)
8 74449161 74449162 A T snv ACI/EurMcwi (MCW), FHL/EurMcwi (MCW), M520/N (KNAW), LCR/2Mco (UMich), LCR/1Mco (UMich), HCR/1Mco (UMich), HCR/2Mco (UMich)
8 74449171 74449172 A C snv SS/JrHsdMcwi (MCW), ACI/N (KNAW), BN/SsN (KNAW), BN/NHsdMcwi (KNAW), ACI/EurMcwi (MCW), LE/Stm (KNAW), M520/N (KNAW), FHL/EurMcwi (MCW), F344/NRrrc (KNAW)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620720 AgrOrtholog
BioCyc Gene G2FUF-29946 BioCyc
Ensembl Genes ENSRNOG00000056701 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000068825 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000071778.2 UniProtKB/TrEMBL
  ENSRNOP00000077033.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000084148.2 UniProtKB/TrEMBL
  ENSRNOT00000085496 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000112984.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.287.190 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  2.30.18.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro TFIIA_a-hlx UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TFIIA_b-brl UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TFIIA_gsu UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TFIIA_gsu_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TFIIA_gsu_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:83828 UniProtKB/Swiss-Prot
NCBI Gene 83828 ENTREZGENE
PANTHER PTHR10966 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam TFIIA_gamma_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TFIIA_gamma_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Gtf2a2 PhenoGen
PIRSF Hum_TFIIA_gamma UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF50784 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2K1B8_RAT UniProtKB/TrEMBL
  A0A8I5ZJD1_RAT UniProtKB/TrEMBL
  B5DEM4_RAT UniProtKB/TrEMBL
  O08950 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2017-05-18 Gtf2a2  general transcription factor 2A subunit 2  Gtf2a2  general transcription factor2A subunit 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2016-05-04 Gtf2a2  general transcription factor2A subunit 2  Gtf2a2  general transcription factor IIA, 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-10-30 Gtf2a2  general transcription factor IIA, 2  Gtf2a2  general transcription factor IIa 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-12-14 Gtf2a2  general transcription factor Iia 2    general transcription factor IIa, 2 (12kD subunit)  Name updated 1299863 APPROVED
2002-08-07 Gtf2a2  general transcription factor IIa, 2 (12kD subunit)      Symbol and Name status set to provisional 70820 PROVISIONAL