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Gene: Taf1c (TATA-box binding protein associated factor, RNA polymerase I subunit C) Ictidomys tridecemlineatus

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Symbol:

Taf1c

Name:

TATA-box binding protein associated factor, RNA polymerase I subunit C

RGD ID:

12517208

Description:

ENCODES a protein that exhibits RNA polymerase I core promoter sequence-specific DNA binding (ortholog); RNA polymerase I general transcription initiation factor activity (ortholog); PARTICIPATES IN RNA polymerase I transcription pathway; ASSOCIATED WITH autistic disorder (ortholog); developmental and epileptic encephalopathy 11 (ortholog); persistent fetal circulation syndrome (ortholog); FOUND IN fibrillar center (ortholog); nucleolus (ortholog); nucleoplasm (ortholog)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

TATA box-binding protein-associated factor RNA polymerase I subunit C

RGD Orthologs

Alliance Orthologs

More Info

more info ...

Latest Assembly:

SpeTri2.0 - Squirrel SpeTri2.0 Assembly

Position:

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024409349	27,895,585 - 27,900,276 (+)	NCBI		HiC_Itri_2
SpeTri2.0	NW_004936641	3,649,177 - 3,653,798 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Object Symbol	Species	Term	Qualifier	Evidence	With	Reference	Notes	Source	Original Reference(s)
Taf1c	Squirrel	developmental and epileptic encephalopathy 11		ISO	RGD:1313816	8554872	ClinVar Annotator: match by term: Complex neurodevelopmental disorder	ClinVar	PMID:25741868
Taf1c	Squirrel	persistent fetal circulation syndrome		ISO	RGD:1313816	8554872	ClinVar Annotator: match by term: Congenital alveolar capillary dysplasia	ClinVar
Taf1c	Squirrel	primary ciliary dyskinesia		ISO	RGD:1313816	8554872	ClinVar Annotator: match by term: Primary ciliary dyskinesia	ClinVar	PMID:19944400\|PMID:19944405\|PMID:24033266\|PMID:28492532
Taf1c	Squirrel	primary ciliary dyskinesia 13		ISO	RGD:1313816	8554872	ClinVar Annotator: match by term: Primary ciliary dyskinesia 13	ClinVar	PMID:25741868

Object Symbol	Species	Term	Qualifier	Evidence	With	Reference	Notes	Source	Original Reference(s)
Taf1c	Squirrel	autistic disorder		ISO	RGD:1313816	9068941	CTD Direct Evidence: marker/mechanism	CTD	PMID:20663923

Cellular Component

Only show annotations with direct experimental evidence (0 objects hidden)

Object Symbol	Species	Term	Qualifier	Evidence	With	Reference	Notes	Source	Original Reference(s)
Taf1c	Squirrel	fibrillar center	located_in	ISO	RGD:1313816	9068941		HPA	GO_REF:0000052
Taf1c	Squirrel	nucleolus	located_in	ISO	RGD:1313816	9068941	PMID:12498690	ParkinsonsUK-UCL	PMID:12498690
Taf1c	Squirrel	nucleoplasm	located_in	ISO	RGD:1313816	9068941		HPA	GO_REF:0000052
Taf1c	Squirrel	RNA polymerase transcription factor SL1 complex	part_of	ISO	RGD:1313816	9068941	PMID:11250903	UniProt	PMID:11250903
Taf1c	Squirrel	RNA polymerase transcription factor SL1 complex	part_of	ISO	UniProtKB:P29037	9068941	PMID:28893950	MGI	PMID:28893950

Molecular Function

Only show annotations with direct experimental evidence (0 objects hidden)

Object Symbol	Species	Term	Qualifier	Evidence	With	Reference	Notes	Source	Original Reference(s)
Taf1c	Squirrel	protein binding	enables	ISO	UniProtKB:P29037	9068941	PMID:28893950	MGI	PMID:28893950
Taf1c	Squirrel	protein binding	enables	ISO	UniProtKB:Q53T94	9068941	PMID:33961781	IntAct	PMID:33961781
Taf1c	Squirrel	protein binding	enables	ISO	UniProtKB:P20226\|UniProtKB:Q01105\|UniProtKB:Q53T94	9068941	PMID:17318177	IntAct	PMID:17318177
Taf1c	Squirrel	protein binding	enables	ISO	UniProtKB:Q9NYV6	9068941	PMID:11250903	UniProt	PMID:11250903
Taf1c	Squirrel	protein binding	enables	ISO	UniProtKB:P20226\|UniProtKB:Q16514	9068941	PMID:17268553	IntAct	PMID:17268553
Taf1c	Squirrel	protein binding	enables	ISO	PR:P29037\|PR:P97357\|PR:P97358	9068941	PMID:9050847	MGI	PMID:9050847
Taf1c	Squirrel	RNA polymerase I core promoter sequence-specific DNA binding	enables	ISO	RGD:1313816	9068941	PMID:22368283	UniProt	PMID:22368283
Taf1c	Squirrel	RNA polymerase I general transcription initiation factor activity	enables	ISO	RGD:1313816	9068941	PMID:12498690	ARUK-UCL	PMID:12498690

RGD Manual Annotations

Only show annotations with direct experimental evidence (0 objects hidden)

Object Symbol	Species	Term	Qualifier	Evidence	With	Reference	Notes	Source	Original Reference(s)
Taf1c	Squirrel	RNA polymerase I transcription pathway		ISO	RGD:1313816	9068941		RGD	PMID:21893173\|PMID:22960599\|REF_RGD_ID:9588243\|REF_RGD_ID:9588244

PMID:22301074	PMID:30032202

Taf1c
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024409349	27,895,585 - 27,900,276 (+)	NCBI		HiC_Itri_2
SpeTri2.0	NW_004936641	3,649,177 - 3,653,798 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

TAF1C
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	16	84,177,855 - 84,187,057 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	16	84,177,847 - 84,187,070 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	16	84,211,461 - 84,220,663 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	16	82,768,962 - 82,778,163 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	16	82,768,962 - 82,778,163	NCBI
Celera	16	68,513,270 - 68,522,472 (-)	NCBI		Celera
Cytogenetic Map	16	q24.1	NCBI
HuRef	16	69,965,230 - 69,974,453 (-)	NCBI		HuRef
CHM1_1	16	85,622,840 - 85,632,064 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	16	90,243,928 - 90,253,130 (-)	NCBI		T2T-CHM13v2.0

Taf1c
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	8	120,324,713 - 120,331,945 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	8	120,324,610 - 120,331,961 (-)	Ensembl		GRCm39 Ensembl
GRCm38	8	119,597,974 - 119,605,206 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	8	119,597,871 - 119,605,222 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	8	122,121,874 - 122,129,140 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	8	122,483,951 - 122,491,160 (-)	NCBI		MGSCv36	mm8
Celera	8	123,815,454 - 123,822,720 (-)	NCBI		Celera
Cytogenetic Map	8	E1	NCBI
cM Map	8	68.02	NCBI

Taf1c
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	19	64,561,079 - 64,567,599 (-)	NCBI		GRCr8
mRatBN7.2	19	47,652,451 - 47,658,971 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	19	47,652,452 - 47,658,971 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	19	54,446,801 - 54,453,321 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	19	55,127,419 - 55,133,939 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	19	57,340,930 - 57,347,450 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	19	52,246,061 - 52,252,642 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	19	52,246,068 - 52,252,587 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	19	62,994,275 - 63,000,801 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	19	49,842,371 - 49,848,891 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	19	49,851,555 - 49,853,756 (-)	NCBI
Celera	19	46,911,512 - 46,918,032 (-)	NCBI		Celera
Cytogenetic Map	19	q12	NCBI

Taf1c
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955564	87,452 - 134,650 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955564	121,988 - 132,347 (+)	NCBI	ChiLan1.0	ChiLan1.0

TAF1C
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	18	93,925,358 - 93,934,122 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	16	99,842,523 - 99,851,287 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	16	64,843,197 - 64,852,408 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	16	84,184,928 - 84,194,147 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	16	84,184,928 - 84,194,147 (-)	Ensembl	panpan1.1		panPan2

TAF1C
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	5	68,175,196 - 68,184,267 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	5	68,175,014 - 68,184,277 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	5	68,189,403 - 68,198,337 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	5	68,413,879 - 68,481,937 (+)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	5	68,473,001 - 68,481,935 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
UNSW_CanFamBas_1.0	5	68,257,398 - 68,266,294 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	5	68,673,069 - 68,682,017 (+)	NCBI		UU_Cfam_GSD_1.0

TAF1C
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	6	4,448,778 - 4,457,088 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	6	4,448,672 - 4,457,109 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	6	5,030,498 - 5,038,769 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

TAF1C
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	5	69,587,592 - 69,596,312 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	5	69,587,769 - 69,593,814 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666047	6,159,382 - 6,167,713 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Taf1c
(Heterocephalus glaber - naked mole-rat)

Naked Mole-Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla_female_1.0 Ensembl	NW_004624746	3,406,644 - 3,412,188 (+)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624746	3,403,122 - 3,412,709 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Click on a value in the shaded box below the category label to view a detailed expression data table for that system.


RefSeq Transcripts	XM_005335456	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_040279601	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_040279602	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	JAESOR010004409	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

XM_005335456 ⟹ XP_005335513

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
HiC_Itri_2	NW_024409349	27,895,589 - 27,900,276 (+)	NCBI
SpeTri2.0	NW_004936641	3,649,177 - 3,653,798 (+)	NCBI

Sequence:

show sequence

AGCGGTGGGCTGCTGCGGCGGAGCGGTCCCTCTGTGGGCTACGGCGCCGGGGCTCCGCTTTCTCGCTCGAGAGTCCGGCGGGAATCGCGCGGGTCACCTTCCCAGACAGGCACCCGAGGCGGCCGCGA
TGGATTTCCCCAGATCCCTGTGTCCCTCATTGTTTATGGCTGGTCCCCTTGGTATGAATGATGCCCCTGACCTGTCCTTCATGTGCAGCTGGAGAGATGCTCTGACGCTGCCAGAGTCCCAGCCCCAC
GATGCCAAGAATGCCATCCCTCGCCTGGCCAAGGACCTGCTCTGGGAGCCGTTGGCACCTGGGCCTCTGCCCCTGATGCCTCCTGGTCCTGACCCCTGGGACCCTGGTGTGACTGCCCAGGACCTCCT
TTTCCGAGGAGGTCGCCACTACCGGAGGCAGCCCCAGGTCGTACTGGATGTGACTGAGCAGCTCAGCCGATTCCTGTGGGATCACGGGGACATAGCCTTTGCACCCCTGGGGAAGCTGATGCTCGAGA
ATTTCAAACTGGAGGGTACCCGTAGCCGCTCCAGGAAGATGACAGTGGTCACTGTGAAGAGGCTGCTCCAGGACCTTGGTGGACACCAGCCCTGGGGGTGTCCCTGGGCATGGATCAGCCACCGGCAG
CGTCGCTTCTCCATCCTCGGGGGCCCAGTGCTTAACAAGTCAGTGTCCAGCCTCCTGGGCAAGCTGCTGCATGAGGAGCTGGCCCTGCGCTGGAAGCAGCTGCTCTTAGACGATGCCTTCACTGGGGG
TGCCTTGGCCTGGGTGCCCGGAAGGACAGCCCGGGTGGGCCAGCTGGTCTACCCTACGGGAGGTGCCCTGGACAAGCTGTGTTTCCAGGAGGTCAGTCTGACCTCAGGAGGCAATCCTCGGGTCTTTG
GGGACCCTGGGTACATCCAGCTGCGCGGACCTGTCCGGCAGGTGGTGACCTGCACCGTCCAGGGAGAAACTCTGCTGGCCGTCCGCTCTGATTACCACTGTGCCATGTGGAAGGTCAGCAGGCAGGAG
CCGCCAGCCCCGCTGCAGACGCTGCAGGTCGAGAAGGGGGCCACGGGGATCAGTCTCAGCCCGCACCTGCCCGGGGAGCTGGCCGTCTGCAGCCGTTCTGGAGCCGTCTGTATGTGGACCCCTCAGGA
TGGGTAATTCCCCTTTCCCAAAAAACACTGCACCCAACAAA

hide sequence

RefSeq Acc Id:

XM_040279601 ⟹ XP_040135535

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
HiC_Itri_2	NW_024409349	27,895,585 - 27,900,276 (+)	NCBI

RefSeq Acc Id:

XM_040279602 ⟹ XP_040135536

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
HiC_Itri_2	NW_024409349	27,895,588 - 27,900,276 (+)	NCBI


Protein RefSeqs	XP_005335513	(Get FASTA)	NCBI Sequence Viewer
	XP_040135535	(Get FASTA)	NCBI Sequence Viewer
	XP_040135536	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	KAG3256761	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:

XP_005335513 ⟸ XM_005335456

- Peptide Label:

isoform X3

- Sequence:

show sequence

MDFPRSLCPSLFMAGPLGMNDAPDLSFMCSWRDALTLPESQPHDAKNAIPRLAKDLLWEPLAPGPLPLMPPGPDPWDPGVTAQDLLFRGGRHYRRQPQVVLDVTEQLSRFLWDHGDIAFAPLGKLMLE
NFKLEGTRSRSRKMTVVTVKRLLQDLGGHQPWGCPWAWISHRQRRFSILGGPVLNKSVSSLLGKLLHEELALRWKQLLLDDAFTGGALAWVPGRTARVGQLVYPTGGALDKLCFQEVSLTSGGNPRVF
GDPGYIQLRGPVRQVVTCTVQGETLLAVRSDYHCAMWKVSRQEPPAPLQTLQVEKGATGISLSPHLPGELAVCSRSGAVCMWTPQDG

hide sequence

RefSeq Acc Id:	XP_040135535 ⟸ XM_040279601
- Peptide Label:	isoform X1

RefSeq Acc Id:	XP_040135536 ⟸ XM_040279602
- Peptide Label:	isoform X2

Database	Acc Id	Source(s)
NCBI Gene	Taf1c	ENTREZGENE

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailable


InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailable


Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
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MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable

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