GTF3C1 (general transcription factor IIIC subunit 1) - Rat Genome Database

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Gene: GTF3C1 (general transcription factor IIIC subunit 1) Canis lupus familiaris
Analyze
Symbol: GTF3C1
Name: general transcription factor IIIC subunit 1
RGD ID: 12177256
Description: ENCODES a protein that exhibits DNA binding (inferred); RNA polymerase III general transcription initiation factor activity (inferred); INVOLVED IN 5S class rRNA transcription by RNA polymerase III (inferred); transcription initiation at RNA polymerase III promoter (inferred); PARTICIPATES IN RNA polymerase III transcription pathway; ASSOCIATED WITH genetic disease (ortholog); neuronal ceroid lipofuscinosis (ortholog); Tracheoesophageal Fistula (ortholog); FOUND IN nucleolus (inferred); nucleoplasm (inferred); nucleus (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: general transcription factor 3C polypeptide 1
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1619,100,699 - 19,174,495 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl619,100,766 - 19,173,972 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha620,679,709 - 20,753,300 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0619,240,601 - 19,314,396 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl619,240,592 - 19,314,395 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1619,038,621 - 19,112,246 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0618,952,332 - 19,025,919 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0619,298,564 - 19,372,137 (+)NCBIUU_Cfam_GSD_1.0
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

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
GTF3C1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1619,100,699 - 19,174,495 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl619,100,766 - 19,173,972 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha620,679,709 - 20,753,300 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0619,240,601 - 19,314,396 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl619,240,592 - 19,314,395 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1619,038,621 - 19,112,246 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0618,952,332 - 19,025,919 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0619,298,564 - 19,372,137 (+)NCBIUU_Cfam_GSD_1.0
GTF3C1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381627,460,613 - 27,549,913 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1627,459,555 - 27,549,913 (-)EnsemblGRCh38hg38GRCh38
GRCh371627,471,934 - 27,561,234 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361627,379,436 - 27,468,752 (-)NCBINCBI36Build 36hg18NCBI36
Build 341627,379,569 - 27,468,775NCBI
Celera1626,249,266 - 26,338,586 (-)NCBICelera
Cytogenetic Map16p12.1NCBI
HuRef1625,560,380 - 25,649,634 (-)NCBIHuRef
CHM1_11628,483,652 - 28,572,971 (-)NCBICHM1_1
T2T-CHM13v2.01627,739,371 - 27,828,673 (-)NCBIT2T-CHM13v2.0
Gtf3c1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm397125,240,126 - 125,306,860 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl7125,240,126 - 125,306,952 (-)EnsemblGRCm39 Ensembl
GRCm387125,640,954 - 125,707,688 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl7125,640,954 - 125,707,780 (-)EnsemblGRCm38mm10GRCm38
MGSCv377132,784,468 - 132,851,202 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv367125,432,102 - 125,498,836 (-)NCBIMGSCv36mm8
Celera7125,499,868 - 125,566,704 (-)NCBICelera
Cytogenetic Map7F3NCBI
cM Map769.01NCBI
Gtf3c1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81189,634,645 - 189,700,848 (-)NCBIGRCr8
mRatBN7.21180,203,995 - 180,270,201 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1180,203,995 - 180,270,201 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1188,541,071 - 188,607,788 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01195,727,113 - 195,793,832 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01188,410,048 - 188,476,867 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01197,032,473 - 197,098,676 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1197,032,474 - 197,098,649 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01204,016,933 - 204,083,175 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41184,701,886 - 184,768,061 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11184,851,766 - 184,917,942 (-)NCBI
Celera1177,873,349 - 177,939,574 (-)NCBICelera
Cytogenetic Map1q36NCBI
Gtf3c1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554935,651,841 - 5,724,426 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554935,651,841 - 5,724,426 (-)NCBIChiLan1.0ChiLan1.0
GTF3C1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21828,855,148 - 28,943,995 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11633,395,157 - 33,483,973 (-)NCBINHGRI_mPanPan1
PanPan1.11627,830,280 - 27,919,020 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1627,830,280 - 27,919,020 (-)Ensemblpanpan1.1panPan2
Gtf3c1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024409344123,027,266 - 123,091,372 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493650111,124,243 - 11,189,562 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493650111,125,126 - 11,189,400 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
GTF3C1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl319,368,394 - 19,439,630 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1319,368,359 - 19,439,642 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2319,601,820 - 19,672,866 (+)NCBISscrofa10.2Sscrofa10.2susScr3
GTF3C1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1525,165,672 - 25,252,370 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl525,165,539 - 25,252,346 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660684,444,425 - 4,531,320 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Gtf3c1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462478212,074,781 - 12,141,315 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462478212,073,895 - 12,141,397 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in GTF3C1
943 total Variants

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 reproductive system respiratory system adipose tissue
High
Medium 2 16 2 2 12 10
Low 3 5 6 6 4 6 4 6 8 6
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_005621388 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_022419922 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_022419923 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038478740 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038478741 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038539985 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038539986 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038604061 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038604062 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038668781 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038668782 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AAEX04000006 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAHUQ010000070 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAQRD010000090 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAUVH010000065 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  REHQ01000006 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSCAFT00000027594   ⟹   ENSCAFP00000025663
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl619,100,766 - 19,173,972 (+)Ensembl
RefSeq Acc Id: ENSCAFT00000068672   ⟹   ENSCAFP00000051836
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl619,100,766 - 19,173,972 (+)Ensembl
RefSeq Acc Id: ENSCAFT00000069183   ⟹   ENSCAFP00000055574
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl619,100,766 - 19,173,972 (+)Ensembl
RefSeq Acc Id: ENSCAFT00000082171   ⟹   ENSCAFP00000066206
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl619,103,615 - 19,173,972 (+)Ensembl
RefSeq Acc Id: ENSCAFT00845007456   ⟹   ENSCAFP00845005892
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl619,240,592 - 19,314,395 (+)Ensembl
RefSeq Acc Id: ENSCAFT00845007487   ⟹   ENSCAFP00845005917
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl619,240,592 - 19,314,395 (+)Ensembl
RefSeq Acc Id: ENSCAFT00845007545   ⟹   ENSCAFP00845005963
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl619,240,592 - 19,313,873 (+)Ensembl
RefSeq Acc Id: XM_005621388   ⟹   XP_005621445
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1619,100,766 - 19,173,653 (+)NCBI
Dog10K_Boxer_Tasha620,679,769 - 20,752,458 (+)NCBI
Sequence:
RefSeq Acc Id: XM_022419922   ⟹   XP_022275630
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1619,100,700 - 19,174,495 (+)NCBI
Dog10K_Boxer_Tasha620,679,709 - 20,753,300 (+)NCBI
Sequence:
RefSeq Acc Id: XM_038478740   ⟹   XP_038334668
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.1619,038,621 - 19,112,246 (+)NCBI
RefSeq Acc Id: XM_038478741   ⟹   XP_038334669
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.1619,038,681 - 19,111,404 (+)NCBI
RefSeq Acc Id: XM_038539985   ⟹   XP_038395913
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.0619,298,564 - 19,372,137 (+)NCBI
RefSeq Acc Id: XM_038539986   ⟹   XP_038395914
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.0619,298,624 - 19,371,295 (+)NCBI
RefSeq Acc Id: XM_038604061   ⟹   XP_038459989
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.0618,952,332 - 19,025,919 (+)NCBI
RefSeq Acc Id: XM_038604062   ⟹   XP_038459990
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.0618,952,392 - 19,025,077 (+)NCBI
RefSeq Acc Id: XM_038668781   ⟹   XP_038524709
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0619,240,601 - 19,314,396 (+)NCBI
RefSeq Acc Id: XM_038668782   ⟹   XP_038524710
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0619,240,661 - 19,313,554 (+)NCBI
Reference Protein Sequences
RefSeq Acc Id: XP_005621445   ⟸   XM_005621388
- Peptide Label: isoform X2
- UniProtKB: A0A8C0QZG9 (UniProtKB/TrEMBL),   A0A8I3N7T6 (UniProtKB/TrEMBL),   A0A8P0SLQ1 (UniProtKB/TrEMBL),   A0A8C0PWW1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_022275630   ⟸   XM_022419922
- Peptide Label: isoform X1
- UniProtKB: A0A8C0PWW1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCAFP00000055574   ⟸   ENSCAFT00000069183
RefSeq Acc Id: ENSCAFP00000051836   ⟸   ENSCAFT00000068672
RefSeq Acc Id: ENSCAFP00000025663   ⟸   ENSCAFT00000027594
RefSeq Acc Id: ENSCAFP00000066206   ⟸   ENSCAFT00000082171
RefSeq Acc Id: XP_038334668   ⟸   XM_038478740
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038334669   ⟸   XM_038478741
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038459989   ⟸   XM_038604061
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038459990   ⟸   XM_038604062
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038524709   ⟸   XM_038668781
- Peptide Label: isoform X1
- UniProtKB: A0A8C0PWW1 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038524710   ⟸   XM_038668782
- Peptide Label: isoform X2
- UniProtKB: A0A8C0QZG9 (UniProtKB/TrEMBL),   A0A8I3N7T6 (UniProtKB/TrEMBL),   A0A8P0SLQ1 (UniProtKB/TrEMBL),   A0A8C0PWW1 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038395913   ⟸   XM_038539985
- Peptide Label: isoform X1
- UniProtKB: A0A8C0PWW1 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038395914   ⟸   XM_038539986
- Peptide Label: isoform X2
- UniProtKB: A0A8C0PA43 (UniProtKB/TrEMBL),   A0A8C0PWW1 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCAFP00845005963   ⟸   ENSCAFT00845007545
RefSeq Acc Id: ENSCAFP00845005917   ⟸   ENSCAFT00845007487
RefSeq Acc Id: ENSCAFP00845005892   ⟸   ENSCAFT00845007456
Protein Domains
B-block binding subunit of TFIIIC

Promoters
RGD ID:13683644
Promoter ID:EPDNEW_C1712
Type:multiple initiation site
Name:GTF3C1_1
Description:general transcription factor IIIC subunit 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1619,100,752 - 19,100,812EPDNEW

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000017408 Ensembl, UniProtKB/TrEMBL
  ENSCAFG00030023399 UniProtKB/TrEMBL
  ENSCAFG00040002057 UniProtKB/TrEMBL
  ENSCAFG00845004156 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000027594.5 UniProtKB/TrEMBL
  ENSCAFT00000068672.2 UniProtKB/TrEMBL
  ENSCAFT00000069183.2 UniProtKB/TrEMBL
  ENSCAFT00030043513.1 UniProtKB/TrEMBL
  ENSCAFT00030043627.1 UniProtKB/TrEMBL
  ENSCAFT00040003919.1 UniProtKB/TrEMBL
  ENSCAFT00040003985.1 UniProtKB/TrEMBL
  ENSCAFT00040004053.1 UniProtKB/TrEMBL
  ENSCAFT00845007456 ENTREZGENE
  ENSCAFT00845007456.1 UniProtKB/TrEMBL
  ENSCAFT00845007487 ENTREZGENE
  ENSCAFT00845007487.1 UniProtKB/TrEMBL
  ENSCAFT00845007545.1 UniProtKB/TrEMBL
InterPro Tfc3-like UniProtKB/TrEMBL
  Tfc3_eWH UniProtKB/TrEMBL
  TFIIIC_Bblock-bd UniProtKB/TrEMBL
KEGG Report cfa:489956 UniProtKB/TrEMBL
NCBI Gene GTF3C1 ENTREZGENE
PANTHER GENERAL TRANSCRIPTION FACTOR 3C POLYPEPTIDE 1 UniProtKB/TrEMBL
  PTHR15180 UniProtKB/TrEMBL
Pfam B-block_TFIIIC UniProtKB/TrEMBL
UniProt A0A8C0PA43 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C0PWR2_CANLF UniProtKB/TrEMBL
  A0A8C0PWW1 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C0PZ38_CANLF UniProtKB/TrEMBL
  A0A8C0QZG9 ENTREZGENE
  A0A8C0RS26_CANLF UniProtKB/TrEMBL
  A0A8I3MS74_CANLF UniProtKB/TrEMBL
  A0A8I3MVN1_CANLF UniProtKB/TrEMBL
  A0A8I3N7T6 ENTREZGENE, UniProtKB/TrEMBL
  A0A8P0P1K3_CANLF UniProtKB/TrEMBL
  A0A8P0SLQ1 ENTREZGENE, UniProtKB/TrEMBL
  A0A8P0T7T6_CANLF UniProtKB/TrEMBL
VGNC ID VGNC:41551 ENTREZGENE