Gtf2h5 (general transcription factor IIH, polypeptide 5) - Rat Genome Database

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Gene: Gtf2h5 (general transcription factor IIH, polypeptide 5) Mus musculus
Analyze
Symbol: Gtf2h5
Name: general transcription factor IIH, polypeptide 5
RGD ID: 1558521
MGI Page MGI
Description: Acts upstream of or within cellular response to gamma radiation and nucleic acid metabolic process. Predicted to be located in nucleolus. Predicted to be part of transcription factor TFIID complex; transcription factor TFIIH core complex; and transcription factor TFIIH holo complex. Is expressed in several structures, including 4-cell stage embryo; alimentary system; bone; ganglia; and telencephalon. Human ortholog(s) of this gene implicated in photosensitive trichothiodystrophy 3. Orthologous to human GTF2H5 (general transcription factor IIH subunit 5).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 2700017P07Rik; 2810432H05Rik; D17Wsu155; D17Wsu155e; general transcription factor IIH polypeptide 5; general transcription factor IIH subunit 5; TFB5 ortholog; TFIIH basal transcription factor complex TTD-A subunit; TFIIH subunit p8
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39176,130,103 - 6,135,763 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl176,130,061 - 6,136,792 (+)EnsemblGRCm39 Ensembl
GRCm38176,079,828 - 6,085,488 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl176,079,786 - 6,086,517 (+)EnsemblGRCm38mm10GRCm38
MGSCv37176,079,828 - 6,085,488 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36176,036,347 - 6,041,961 (+)NCBIMGSCv36mm8
Celera176,617,614 - 6,623,290 (+)NCBICelera
Cytogenetic Map17A1NCBI
cM Map173.7NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Molecular Pathway Annotations     Click to see Annotation Detail View
Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
# Reference Title Reference Citation
1. A history of TFIIH: two decades of molecular biology on a pivotal transcription/repair factor. Egly JM and Coin F, DNA Repair (Amst). 2011 Jul 15;10(7):714-21. doi: 10.1016/j.dnarep.2011.04.021. Epub 2011 May 17.
2. Nucleotide excision repair: new tricks with old bricks. Kamileri I, etal., Trends Genet. 2012 Nov;28(11):566-73. doi: 10.1016/j.tig.2012.06.004. Epub 2012 Jul 22.
3. Functional annotation of a full-length mouse cDNA collection. Kawai J, etal., Nature. 2001 Feb 8;409(6821):685-90.
4. Genome-wide mapping of unselected transcripts from extraembryonic tissue of 7.5-day mouse embryos reveals enrichment in the t-complex and under-representation on the X chromosome. Ko MS, etal., Hum Mol Genet 1998 Nov;7(12):1967-78.
5. MGDs mouse GO annotations MGD data from the GO Consortium
6. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
7. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
8. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
9. Mouse MP Annotation Import Pipeline RGD automated import pipeline
10. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
11. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:8889548   PMID:10349636   PMID:10725249   PMID:11042159   PMID:11076861   PMID:12477932   PMID:14610273   PMID:15489334   PMID:15722415   PMID:16141072   PMID:16141073   PMID:18799693  
PMID:21267068   PMID:21731673   PMID:21873635   PMID:22323595   PMID:23562818   PMID:23637614   PMID:25737280   PMID:28888655   PMID:32968282   PMID:37349316  


Genomics

Comparative Map Data
Gtf2h5
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39176,130,103 - 6,135,763 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl176,130,061 - 6,136,792 (+)EnsemblGRCm39 Ensembl
GRCm38176,079,828 - 6,085,488 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl176,079,786 - 6,086,517 (+)EnsemblGRCm38mm10GRCm38
MGSCv37176,079,828 - 6,085,488 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36176,036,347 - 6,041,961 (+)NCBIMGSCv36mm8
Celera176,617,614 - 6,623,290 (+)NCBICelera
Cytogenetic Map17A1NCBI
cM Map173.7NCBI
GTF2H5
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh386158,168,350 - 158,199,344 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl6158,168,350 - 158,199,344 (+)EnsemblGRCh38hg38GRCh38
GRCh376158,589,382 - 158,620,376 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 366158,511,489 - 158,533,375 (+)NCBINCBI36Build 36hg18NCBI36
Build 346158,561,909 - 158,583,783NCBI
Celera6159,237,408 - 159,268,427 (+)NCBICelera
Cytogenetic Map6q25.3NCBI
HuRef6156,060,590 - 156,091,731 (+)NCBIHuRef
CHM1_16158,851,643 - 158,883,293 (+)NCBICHM1_1
T2T-CHM13v2.06159,413,734 - 159,444,757 (+)NCBIT2T-CHM13v2.0
Gtf2h5
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8149,061,904 - 49,068,612 (+)NCBIGRCr8
mRatBN7.2146,656,804 - 46,663,512 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl146,656,859 - 46,664,939 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx147,205,928 - 47,212,502 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0153,193,190 - 53,199,764 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0147,281,356 - 47,287,930 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0146,978,345 - 46,985,032 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl146,978,458 - 46,985,032 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0148,280,850 - 48,287,542 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4140,858,997 - 40,865,571 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera142,346,319 - 42,352,893 (+)NCBICelera
Cytogenetic Map1q11NCBI
Gtf2h5
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554394,226,530 - 4,234,261 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554394,226,530 - 4,234,390 (-)NCBIChiLan1.0ChiLan1.0
GTF2H5
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v25178,281,654 - 178,309,090 (+)NCBINHGRI_mPanPan1-v2
PanPan1.1 Ensembl6158,126,665 - 158,153,663 (+)Ensemblpanpan1.1panPan2
GTF2H5
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1147,669,196 - 47,681,370 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl147,669,248 - 47,681,368 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha148,513,181 - 48,525,308 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0147,855,929 - 47,868,099 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl147,855,958 - 47,868,083 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1147,734,059 - 47,746,221 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0147,605,860 - 47,618,020 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0148,165,020 - 48,177,420 (+)NCBIUU_Cfam_GSD_1.0
Gtf2h5
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404946142,731,888 - 142,747,220 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364899,992,156 - 9,992,938 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364899,983,935 - 9,993,179 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
GTF2H5
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl18,917,240 - 8,934,983 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.118,928,280 - 8,935,030 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2110,900,665 - 10,907,424 (-)NCBISscrofa10.2Sscrofa10.2susScr3
GTF2H5
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1 Ensembl1385,771,630 - 85,782,646 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604058,139,835 - 58,152,711 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Gtf2h5
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462478569,978 - 82,012 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462478570,425 - 82,098 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Gtf2h5
134 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:1582
Count of miRNA genes:596
Interacting mature miRNAs:763
Transcripts:ENSMUST00000039487, ENSMUST00000100955, ENSMUST00000146035
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

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

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


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1357452Vtbt18_mvertebral trabecular bone trait 18 (mouse)Not determined17120975022Mouse
1302196Myaa1_mmodifier of Yaa 1 (mouse)Not determined17120975022Mouse
1357902Obq19_mobesity QTL 19 (mouse)Not determined17125662076Mouse
12910982Pifs2_mpeptide-induced fatal syndrome 2 (mouse)17126189355Mouse
1357743Lith3_mlithogenic gene 3 (mouse)Not determined17126194456Mouse
1301615Cfld3_mcystic fibrosis lung disease 3 (mouse)Not determined17127081639Mouse
1300613Pcyts4_mplasmacytoma susceptibility 4 (mouse)Not determined17127081639Mouse
1302100Circp2_mcircadian photosensitivity 2 (mouse)Not determined17129198453Mouse
12910527Nrq1a_mnoise-induced hearing loss resistant QTL 1a (mouse)17129198453Mouse
12910528Nrq1_mnoise-induced hearing loss resistant QTL 1 (mouse)17129198453Mouse
13524851Asrq8_macoustic startle response 8 (mouse)17131030170Mouse
10412276Leci2_mleukocyte endothelial cell interactions 2 (mouse)Not determined17334817537348299Mouse
1357680Idd23_minsulin dependent diabetes susceptibility 23 (mouse)Not determined17397489026401133Mouse
1300890Bhr3_mbronchial hyperresponsiveness 3 (mouse)Not determined17397489048866091Mouse
1301327Lmr7_mleishmaniasis resistance 7 (mouse)Not determined17485475227715939Mouse
4141215Mnic1_mmacronutrient intake, carbohydrate 1 (mouse)Not determined485475245670266Mouse
1300706Alan1_malloantigen response 1 (mouse)Not determined17485475246469702Mouse
1357789Kdnw3_mkidney weight 3 (mouse)Not determined17485475247885665Mouse
4141272Tfv1_mtotal food volume 1 (mouse)Not determined485475265637357Mouse

Markers in Region
RH124682  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38176,084,772 - 6,085,001UniSTSGRCm38
MGSCv37176,084,772 - 6,085,001UniSTSGRCm37
Celera176,622,573 - 6,622,802UniSTS
Cytogenetic Map17A1UniSTS
cM Map173.3UniSTS
RH125776  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38176,084,847 - 6,085,096UniSTSGRCm38
MGSCv37176,084,847 - 6,085,096UniSTSGRCm37
Celera176,622,648 - 6,622,897UniSTS
Cytogenetic Map17A1UniSTS
cM Map173.3UniSTS
cM Map175.0UniSTS
Whitehead/MRC_RH17127.65UniSTS
Gtf2h5  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map17A1UniSTS
cM Map173.3UniSTS
Gtf2h5  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map17A1UniSTS
cM Map173.3UniSTS


Expression


Sequence


RefSeq Acc Id: ENSMUST00000039487   ⟹   ENSMUSP00000040355
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl176,130,061 - 6,136,792 (+)Ensembl
GRCm38.p6 Ensembl176,079,786 - 6,086,517 (+)Ensembl
RefSeq Acc Id: ENSMUST00000100955   ⟹   ENSMUSP00000098515
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl176,130,205 - 6,135,407 (+)Ensembl
GRCm38.p6 Ensembl176,079,930 - 6,085,132 (+)Ensembl
RefSeq Acc Id: ENSMUST00000146035
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl176,130,112 - 6,132,614 (+)Ensembl
GRCm38.p6 Ensembl176,079,837 - 6,082,339 (+)Ensembl
RefSeq Acc Id: NM_001357804   ⟹   NP_001344733
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39176,130,196 - 6,135,763 (+)NCBI
GRCm38176,079,921 - 6,085,488 (+)NCBI
Sequence:
RefSeq Acc Id: NM_181392   ⟹   NP_852057
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39176,130,103 - 6,135,763 (+)NCBI
GRCm38176,079,828 - 6,085,488 (+)ENTREZGENE
MGSCv37176,079,828 - 6,085,488 (+)RGD
Celera176,617,614 - 6,623,290 (+)RGD
cM Map17 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_006523240   ⟹   XP_006523303
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39176,130,187 - 6,135,406 (+)NCBI
GRCm38176,079,918 - 6,085,131 (+)NCBI
Sequence:
RefSeq Acc Id: NP_852057   ⟸   NM_181392
- UniProtKB: Q8BT75 (UniProtKB/Swiss-Prot),   Q8K2X8 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006523303   ⟸   XM_006523240
- Peptide Label: isoform X1
- UniProtKB: Q8BT75 (UniProtKB/Swiss-Prot),   Q8K2X8 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_001344733   ⟸   NM_001357804
- UniProtKB: Q8K2X8 (UniProtKB/Swiss-Prot),   Q8BT75 (UniProtKB/Swiss-Prot)
RefSeq Acc Id: ENSMUSP00000098515   ⟸   ENSMUST00000100955
RefSeq Acc Id: ENSMUSP00000040355   ⟸   ENSMUST00000039487

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q8K2X8-F1-model_v2 AlphaFold Q8K2X8 1-71 view protein structure

Promoters
RGD ID:6828667
Promoter ID:MM_KWN:21962
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day1,   3T3L1_Day2,   3T3L1_Day3,   3T3L1_Day4,   BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   ES_Cell,   Kidney,   Liver,   Lung,   MEF_B4,   MEF_B6,   Spleen
Transcripts:ENSMUST00000024570,   ENSMUST00000097432,   ENSMUST00000115780,   OTTMUST00000058798,   OTTMUST00000058800,   OTTMUST00000058803,   OTTMUST00000058804,   UC008AFX.1,   UC008AGB.1
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36176,079,534 - 6,080,034 (-)MPROMDB
RGD ID:13674638
Promoter ID:EPDNEW_M21468
Type:initiation region
Name:Gtf2h5_1
Description:Mus musculus general transcription factor IIH, polypeptide 5, transcript variant 2, mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38176,079,835 - 6,079,895EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:107227 AgrOrtholog
Ensembl Genes ENSMUSG00000034345 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000039487 ENTREZGENE
  ENSMUST00000039487.10 UniProtKB/Swiss-Prot
  ENSMUST00000100955 ENTREZGENE
  ENSMUST00000100955.3 UniProtKB/Swiss-Prot
Gene3D-CATH 3.30.70.1220 UniProtKB/Swiss-Prot
InterPro TFB5-like_sf UniProtKB/Swiss-Prot
  TFIIH_TTDA/Tfb5 UniProtKB/Swiss-Prot
KEGG Report mmu:66467 UniProtKB/Swiss-Prot
MGD MGI:107227 ENTREZGENE
NCBI Gene 66467 ENTREZGENE
PANTHER GENERAL TRANSCRIPTION FACTOR IIH SUBUNIT 5 UniProtKB/Swiss-Prot
  PTHR28580 UniProtKB/Swiss-Prot
Pfam Tfb5 UniProtKB/Swiss-Prot
PhenoGen Gtf2h5 PhenoGen
SMART Tbf5 UniProtKB/Swiss-Prot
Superfamily-SCOP SSF142897 UniProtKB/Swiss-Prot
UniProt Q8BT75 ENTREZGENE
  Q8K2X8 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary Q8BT75 UniProtKB/Swiss-Prot