Tcea1 (transcription elongation factor A1)

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Gene: Tcea1 (transcription elongation factor A1) Rattus norvegicus

Analyze

Symbol:

Tcea1

Name:

transcription elongation factor A1

RGD ID:

1309880

Description:

Predicted to enable DNA binding activity and zinc ion binding activity. Predicted to be involved in transcription elongation by RNA polymerase II. Predicted to act upstream of or within erythrocyte differentiation and positive regulation of transcription by RNA polymerase II. Predicted to be located in nucleolus and nucleoplasm. Predicted to be part of transcription factor TFIID complex. Orthologous to human TCEA1 (transcription elongation factor A1); PARTICIPATES IN RNA polymerase II transcription elongation pathway; INTERACTS WITH 17alpha-ethynylestradiol; 2,3,7,8-tetrachlorodibenzodioxine; acrylamide.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Previously known as:

LOC362479; MGC116288; transcription elongation factor A (SII) 1; transcription elongation factor A protein 1; transcription elongation factor S-II protein 1

RGD Orthologs

Alliance Genes

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	TCEA1 (transcription elongation factor A1)	HGNC	EggNOG, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, Panther, PhylomeDB, Treefam
Mus musculus (house mouse):	Tcea1 (transcription elongation factor A (SII) 1)	RGD	RGD
Sus scrofa (pig):	TCEA1 (transcription elongation factor A1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	TCEA1 (transcription elongation factor A1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Tcea1 (transcription elongation factor A1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Other homologs ²
Homo sapiens (human):	TCEA2 (transcription elongation factor A2)	HGNC	OrthoDB
Alliance orthologs ³
Homo sapiens (human):	TCEA1 (transcription elongation factor A1)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Tcea1 (transcription elongation factor A (SII) 1)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	tcea1 (transcription elongation factor A (SII), 1)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|SonicParanoid)
Saccharomyces cerevisiae (baker's yeast):	DST1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|SonicParanoid)
Drosophila melanogaster (fruit fly):	CG8117	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|PhylomeDB)
Caenorhabditis elegans (roundworm):	T24H10.1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|SonicParanoid)
Drosophila melanogaster (fruit fly):	TfIIS	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	tcea1	Alliance	DIOPT (Ensembl Compara\|OMA\|OrthoFinder\|PANTHER)

Related Pseudogenes:

Tcea1l1

Latest Assembly:

mRatBN7.2 - mRatBN7.2 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	5	14,631,454 - 14,668,769 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	5	14,631,454 - 14,668,745 (-)	Ensembl		mRatBN7.2 Ensembl
mRatBN7.2 Ensembl	15	10,400,829 - 10,402,942 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	5	16,825,171 - 16,862,994 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	15	13,439,353 - 13,441,754 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	5	18,159,843 - 18,197,667 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	5	14,511,183 - 14,548,494 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	5	14,511,183 - 14,548,429 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	5	19,293,482 - 19,330,800 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	5	14,834,045 - 14,871,291 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	5	14,834,044 - 14,871,291 (-)	NCBI
Celera	5	14,002,673 - 14,039,908 (-)	NCBI		Celera
Cytogenetic Map	5	q12	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

genetic disease (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,2-dimethylhydrazine (ISO)

17alpha-ethynylestradiol (EXP)

17beta-estradiol (ISO)

2,3,7,8-tetrachlorodibenzodioxine (EXP,ISO)

5-azacytidine (ISO)

acrylamide (EXP)

aflatoxin B1 (ISO)

all-trans-retinoic acid (ISO)

aristolochic acid A (ISO)

arsenite(3-) (ISO)

benzo[a]pyrene (ISO)

benzo[e]pyrene (ISO)

bis(2-ethylhexyl) phthalate (ISO)

bisphenol A (EXP,ISO)

bucladesine (ISO)

cadmium dichloride (EXP)

caffeine (ISO)

clofibric acid (EXP)

copper(II) sulfate (ISO)

coumarin (ISO)

dibutyl phthalate (EXP)

dicrotophos (ISO)

disodium selenite (ISO)

endosulfan (EXP)

enzyme inhibitor (ISO)

ethanol (ISO)

flutamide (EXP)

folic acid (ISO)

fulvestrant (ISO)

genistein (ISO)

gentamycin (EXP)

gold atom (ISO)

gold(0) (ISO)

hydrogen peroxide (ISO)

ivermectin (ISO)

lamivudine (ISO)

medroxyprogesterone acetate (ISO)

methapyrilene (ISO)

N-nitrosodiethylamine (EXP)

nefazodone (EXP)

nickel subsulfide (EXP)

paracetamol (ISO)

perfluorononanoic acid (ISO)

perfluorooctanoic acid (ISO)

phenobarbital (ISO)

quercitrin (ISO)

rimonabant (ISO)

sodium arsenite (ISO)

sunitinib (ISO)

tert-butyl hydroperoxide (ISO)

Tributyltin oxide (ISO)

valproic acid (ISO)

versicolorin A (ISO)

zidovudine (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

DNA-templated transcription (IBA)

erythrocyte differentiation (ISO)

positive regulation of DNA-templated transcription (ISO)

positive regulation of exoribonuclease activity (IDA)

positive regulation of transcription by RNA polymerase II (IBA,ISO)

transcription elongation by RNA polymerase II (IEA)

Cellular Component

nucleolus (ISO)

nucleoplasm (ISO)

nucleus (IBA,IEA)

transcription factor TFIID complex (ISO)

Molecular Function

DNA binding (IEA)

protein binding (ISO)

zinc ion binding (IEA)

Molecular Pathway Annotations Click to see Annotation Detail View

RNA polymerase II transcription elongation pathway (ISO)

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.	Comparative TFIIS-mediated transcript cleavage by mammalian RNA polymerase II arrested at a lesion in different transcription systems.	Kalogeraki VS, etal., DNA Repair (Amst). 2005 Sep 28;4(10):1075-87.
3.	Control of transcriptional elongation.	Kwak H and Lis JT, Annu Rev Genet. 2013;47:483-508. doi: 10.1146/annurev-genet-110711-155440. Epub 2013 Sep 11.
4.	Rat ISS GO annotations from MGI mouse gene data--August 2006	MGD data from the GO Consortium
5.	GOA pipeline	RGD automated data pipeline
6.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
7.	Comprehensive gene review and curation	RGD comprehensive gene curation

Additional References at PubMed

PMID:12477932	PMID:12761297	PMID:12943681	PMID:15489334	PMID:16581793	PMID:16854843	PMID:27193682

Genomics

Comparative Map Data

Tcea1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	5	14,631,454 - 14,668,769 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	5	14,631,454 - 14,668,745 (-)	Ensembl		mRatBN7.2 Ensembl
mRatBN7.2 Ensembl	15	10,400,829 - 10,402,942 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	5	16,825,171 - 16,862,994 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	15	13,439,353 - 13,441,754 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	5	18,159,843 - 18,197,667 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	5	14,511,183 - 14,548,494 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	5	14,511,183 - 14,548,429 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	5	19,293,482 - 19,330,800 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	5	14,834,045 - 14,871,291 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	5	14,834,044 - 14,871,291 (-)	NCBI
Celera	5	14,002,673 - 14,039,908 (-)	NCBI		Celera
Cytogenetic Map	5	q12	NCBI

TCEA1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	8	53,966,556 - 54,022,448 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	8	53,966,552 - 54,022,448 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	8	54,879,116 - 54,935,008 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	8	55,041,669 - 55,097,561 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Celera	8	50,869,815 - 50,924,590 (-)	NCBI		Celera
Cytogenetic Map	8	q11.23	NCBI
HuRef	8	50,347,344 - 50,402,986 (-)	NCBI		HuRef
CHM1_1	8	54,930,631 - 54,986,634 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	8	54,343,951 - 54,399,849 (-)	NCBI		T2T-CHM13v2.0

Tcea1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	1	4,927,917 - 4,968,132 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	1	4,928,037 - 4,968,132 (+)	Ensembl		GRCm39 Ensembl
GRCm38	1	4,857,694 - 4,897,909 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	1	4,857,814 - 4,897,909 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	1	4,847,775 - 4,887,990 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	1	4,847,896 - 4,887,986 (+)	NCBI		MGSCv36	mm8
Celera	1	4,869,075 - 4,909,317 (+)	NCBI		Celera
Cytogenetic Map	1	A1	NCBI
cM Map	1	1.79	NCBI

TCEA1
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	4	77,109,594 - 77,138,320 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	4	77,109,555 - 77,138,324 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	4	84,179,838 - 84,208,587 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

TCEA1
(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	8	50,048,771 - 50,104,189 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	8	50,048,474 - 50,104,130 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666039	91,833,826 - 91,890,759 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Tcea1
(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_004624735	1,637,465 - 1,704,154 (+)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624735	1,637,453 - 1,700,839 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Tcea1
146 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	436
Count of miRNA genes:	243
Interacting mature miRNAs:	279
Transcripts:	ENSRNOT00000010893
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 (mRatBN7.2)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
1331756	Rf34	Renal function QTL 34	4.16275		kidney blood vessel physiology trait (VT:0100012)	absolute change in renal blood flow rate (CMO:0001168)	5	1	90450412	Rat
70212	Niddm25	Non-insulin dependent diabetes mellitus QTL 25	3.54		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	5	1	131345958	Rat
1331771	Rf35	Renal function QTL 35	4.36965		kidney blood vessel physiology trait (VT:0100012)	absolute change in renal blood flow rate (CMO:0001168)	5	729470	86724018	Rat
2312562	Pur18	Proteinuria QTL 18	2.6	0.001	urine total protein amount (VT:0000032)	urine total protein excretion rate (CMO:0000756)	5	2138965	32656739	Rat
1576314	Eutr1	Estrogen induced uterine response QTL 1			uterus integrity trait (VT:0010575)	pyometritis severity score (CMO:0002009)	5	2138965	166875058	Rat
8662454	Vetf3	Vascular elastic tissue fragility QTL 3	27.4		artery integrity trait (VT:0010639)	number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)	5	2282226	69540447	Rat
2313085	Bss59	Bone structure and strength QTL 59	2.9	0.0001	long bone metaphysis morphology trait (VT:0000133)	tibia midshaft total cross-sectional area (CMO:0001715)	5	3844018	26141981	Rat
1300117	Hrtrt8	Heart rate QTL 8	3.49		heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	5	3844018	47869213	Rat
61462	Niddm10	Non-insulin dependent diabetes mellitus QTL 10	3.9	0.001	blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	5	5112159	47171491	Rat
631827	Alc4	Alcohol consumption QTL 4	3.5		consumption behavior trait (VT:0002069)	ethanol drink intake rate (CMO:0001407)	5	8187501	18616199	Rat
2293666	Bmd38	Bone mineral density QTL 38	4.4		femur size trait (VT:1000369)	femoral neck cortical cross-sectional area (CMO:0001702)	5	8948228	53948228	Rat
7394712	Emca13	Estrogen-induced mammary cancer QTL 13			mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	5	9823266	99753708	Rat
1641903	Alcrsp3	Alcohol response QTL 3			response to alcohol trait (VT:0010489)	duration of loss of righting reflex (CMO:0002289)	5	12689285	57689285	Rat
634305	Mamtr1	Mammary tumor resistance QTL 1		0.0001	mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	5	12789751	113558310	Rat

Markers in Region

RH140518

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	15	10,403,143 - 10,403,336 (+)	MAPPER	mRatBN7.2
mRatBN7.2	5	14,631,582 - 14,631,725 (+)	MAPPER	mRatBN7.2
Rnor_6.0	5	14,511,312 - 14,511,454	NCBI	Rnor6.0
Rnor_6.0	15	11,652,013 - 11,652,205	NCBI	Rnor6.0
Rnor_5.0	15	15,690,726 - 15,690,918	UniSTS	Rnor5.0
Rnor_5.0	5	19,293,611 - 19,293,753	UniSTS	Rnor5.0
RGSC_v3.4	5	14,834,174 - 14,834,316	UniSTS	RGSC3.4
RGSC_v3.4	15	11,881,548 - 11,881,740	UniSTS	RGSC3.4
Celera	15	10,413,518 - 10,413,710	UniSTS
Celera	5	14,002,802 - 14,002,944	UniSTS
Cytogenetic Map	5	q12	UniSTS
Cytogenetic Map	15	p16	UniSTS

RH140111

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	5	14,648,621 - 14,648,824 (+)	MAPPER	mRatBN7.2
Rnor_6.0	5	14,528,350 - 14,528,552	NCBI	Rnor6.0
Rnor_5.0	5	19,310,650 - 19,310,852	UniSTS	Rnor5.0
RGSC_v3.4	5	14,851,212 - 14,851,414	UniSTS	RGSC3.4
Celera	5	14,019,841 - 14,020,043	UniSTS
Cytogenetic Map	5	q12	UniSTS

RH141473

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	15	10,402,454 - 10,402,604 (+)	MAPPER	mRatBN7.2
mRatBN7.2	5	14,632,264 - 14,632,414 (-)	MAPPER	mRatBN7.2
mRatBN7.2	5	14,632,264 - 14,632,414 (+)	MAPPER	mRatBN7.2
mRatBN7.2	15	10,402,454 - 10,402,604 (-)	MAPPER	mRatBN7.2
Rnor_6.0	15	11,651,324 - 11,651,473	NCBI	Rnor6.0
Rnor_6.0	5	14,511,994 - 14,512,143	NCBI	Rnor6.0
Rnor_5.0	5	19,294,293 - 19,294,442	UniSTS	Rnor5.0
Rnor_5.0	15	15,690,037 - 15,690,186	UniSTS	Rnor5.0
RGSC_v3.4	5	14,834,856 - 14,835,005	UniSTS	RGSC3.4
RGSC_v3.4	15	11,880,859 - 11,881,008	UniSTS	RGSC3.4
Celera	15	10,412,829 - 10,412,978	UniSTS
Celera	5	14,003,484 - 14,003,633	UniSTS
Cytogenetic Map	15	p16	UniSTS
Cytogenetic Map	5	q12	UniSTS

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	10	74	35	41	11	8
Low								1
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001025735	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006237816	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039110212	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039110213	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039110214	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC131369	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC099141	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ219027	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ227501	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000160	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSRNOT00000010893 ⟹ ENSRNOP00000010893

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	5	14,631,457 - 14,668,745 (-)	Ensembl
Rnor_6.0 Ensembl	5	14,511,183 - 14,548,429 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000104892 ⟹ ENSRNOP00000084958

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	5	14,631,454 - 14,668,703 (-)	Ensembl

RefSeq Acc Id:

NM_001025735 ⟹ NP_001020906

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	5	14,631,454 - 14,668,704 (-)	NCBI
Rnor_6.0	5	14,511,183 - 14,548,429 (-)	NCBI
Rnor_5.0	5	19,293,482 - 19,330,800 (-)	NCBI
RGSC_v3.4	5	14,834,045 - 14,871,291 (-)	RGD
Celera	5	14,002,673 - 14,039,908 (-)	RGD

Sequence:

show sequence

GGGCTTCGGGGCTCGTCGAGCGTCTGCGCAGCTTCTCTCGCTTCCCGTCCGCTGTGGCCGGGCG
AGAGGGGCCTTCCGGAGCCATGGAGGACGAGGTGGTTCGCATTGCCAAGAAGATGGACAAAATG
GTGCAGAAAAAGAACGCGGCCGGTGCATTGGATTTGCTGAAAGAGCTTAAGAATATTCCCATGA
CCCTGGAATTATTACAGTCCACGAGAATTGGAATGTCTGTCAATGCTATTCGCAAGCAGAGTAC
AGATGAAGAAGTCACATCTCTAGCCAAATCACTCATCAAATCCTGGAAAAAATTACTAGATGGA
CCATCAACTGATAAAGACTCTGAAGAAAAGAAAAAAGAACCTGCAATTTCATCACAGAATAGCC
CTGAAGCAAGAGAAGAAAGTAGTTCTAGCAGCCATGTAAGCAGCAGAAAGGATGAGACAAATGC
TCGAGATACTTATGTTTCATCTTTTCCTCGGGCACCAAGCACTTCTGATTCTGTGCGGCTCAAG
TGTAGGGAGATGCTTGCCGCAGCTCTCCGGACAGGAGATGATTATGTTGCTATTGGAGCTGATG
AGGAAGAACTGGGATCTCAGATTGAGGAAGCTATATATCAAGAAATAAGGAATACAGACATGAA
ATACAAAAACAGAGTACGAAGTAGGATATCAAATCTTAAAGATGCAAAGAATCCAAATTTAAGG
AAAAATGTGCTGTGTGGGAATATTCCTCCTGACCTGTTTGCTAGAATGACAGCAGAGGAAATGG
CTAGTGATGAGCTCAAAGAGATGAGGAAAAACCTGACCAAAGAAGCCATCAGGGAGCATCAGAT
GGCCAAGACCGGTGGGACCCAGACTGACTTGTTCACTTGTGGCAAATGTAAAAAGAAGAACTGC
ACTTACACACAGGTGCAAACTCGTAGTGCTGATGAACCAATGACAACTTTTGTTGTATGTAATG
AATGTGGAAATCGGTGGAAGTTCTGTTGAGTTTGGAAGAATTGGCAAGGTATCTGGACCATTAA
GAAAAACCAATTTTGTAATTAGCTTTAAAATTAAGCCAGGCTACTCGTTTCCCTGCAAGTGAAA
TTCGTAAACAGTATACATCCCATGGGTTGGTCTTTGTTGTTTACCTGACAGTCTTTCTTAAATG
CCTTCTGTGGTCTCAGATCAGCTGGGAGACCATAAAATAATTATATAATGTGTTGCTTTGTTCT
TCTTTTTTATAAGTTGATGTTGCATTTTATTAAATATTAACTTTTTATAGTCTAGAACACAAAA
ATTCTGTTGATCTTACATACAGATAAATTGCTTTTCTCATTGGTATGTACCTAAAAATATTAAA
GGAAAAGGAATAATATAAATTTTAGAGTTACCAACTATACTATGTTTTCTAGTAGTACTTGACC
GGCTTCTCAAAGTTGTGCACACAATTGGAACTCGCATATTACTTTACTCTTAATTACTGTGTTC
ACAAGCCTCGGATCCTTAGATCTCTTGCGTCTATGACTAACCACAGTGACCACTTCTTGTATTT
CTCACACATGTATATTACCATTTTTTAATAGATTTTACTTTGAAAACTGACTTGGTTGCCATCA
GTTTATTTTATTTGATTTTGTGATGTATTTTAGTTTTACAGAGCTAAGCTTTTCACAAAGCCCC
TCACAGGCATACTTCTGGTGAATTTTCCCCCATAGGAAGCCATGCTGTGAAGAAAATATTAGTA
TCTGAGTAGAGTTCCTGGAGGCAACATGACTGTACTTGCACTTGGAAACCTACTGACCAAGGAT
TAAGCCTGAGAACTATGTAAATTACTAAGCTGTGCTCTTTGCATATGGAGGATGCGAAAAAAAT
CCTTTAGACTGAATCTTTTGTGCTAAATTTTTTCTTACATGATGATGTCAAGCCAACTGAAATG
TAGGCCGTAGCAAGTAGTTTTACAAAACATACTTCACAATTAAGTTTTACTTTTGTTTAAATGT
GTCCCACTTGTTTTGCTAGTACTAAGCAGTGGCTTTCACATCGTTTTCTTGACACAGACGTCCT
ATTGCACAGAGCAAAGGCCACTATTTAAAGTTTACAACTTAAGTGCCTCTGCCTGTGTTCAGAC
TTCTGTGTAAAGACCACTGCACAAGCTTTGCGCTCTGCTCTGCTCTGCTCTGCTCTGCAGACCG
TTTGACATAACATAGAAAACAATATGCTAAAAGGATTGGTCCATGGGTAATTGCTGTCACTTTA
AAAATAAAGTACATTTTGAAAGAATTAGTTTAAAAGTAATAAGGTTAAAATAGCCCCACTTTTA
AGTGATCCATTTTAAAATTTGTAAATCAATAAAATTTTTTGTTGTTAAATATAAAAAAAAAAAA
AAAAAAAAAAAAAAAAAAAAAA

hide sequence

RefSeq Acc Id:

XM_006237816 ⟹ XP_006237878

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	5	14,631,454 - 14,668,769 (-)	NCBI
Rnor_6.0	5	14,511,183 - 14,548,494 (-)	NCBI
Rnor_5.0	5	19,293,482 - 19,330,800 (-)	NCBI

Sequence:

show sequence

ACCTAGGGGGTGGAGCGTTTGCCTCCGCCGCCGCGGGCCGGGTCTGTGAGGAAGGCCTAGGCCG
TGGGCTTCGGGGCTCGTCGAGCGTCTGCGCAGCTTCTCTCGCTTCCCGTCCGCTGTGGCCGGGC
GAGAGGGGCCTTCCGGAGCCATGGAGGACGAGGTGGTTCGCATTGCCAAGAAGATGGACAAAAT
GGTGCAGAAAAAGAACGCGGCCGGTGCATTGGATTTGCTGAAAGAGCTTAAGAATATTCCCATG
ACCCTGGAATTATTACAGTCCACGAGAATTGGAATGTCTGTCAATGCTATTCGCAAGCAGAGTA
CAGATGAAGAAGTCACATCTCTAGCCAAATCACTCATCAAATCCTGGAAAAAATTACTAGATGG
ACCATCAACTGATAAAGACTCTGAAGAAAAGAAAAAAGAACCTGCAATTTCATCACAGAATAGC
CCTGAAGCAAGAGAAGAAAGTAGTTCTAGCAGCCATGTAAGCAGCAGAAAGGATGAGACAAATG
CTCGAGATACTTATGTTTCATCTTTTCCTCGGGCACCAAGCACTTCTGATTCTGTGCGGCTCAA
GTGTAGGGAGATGCTTGCCGCAGCTCTCCGGACAGGAGATGATTATGTTGCTATTGGAGCTGAT
GAGGAAGAACTGGGATCTCAGATTGAGGAAGCTATATATCAAGAAATAAGGAATACAGACATGA
AATACAAAAACAGAGTACGAAGTAGGATATCAAATCTTAAAGATGCAAAGAATCCAAATTTAAG
GAAAAATGTGCTGTGTGGGAATATTCCTCCTGACCTGTTTGCTAGAATGACAGCAGAGGAAATG
GCTAGTGATGAGCTCAAAGAGATGAGGAAAAACCTGACCAAAGAAGCCATCAGGGAGCATCAGA
TGGCCAAGACCGGTGGGACCCAGACTGACTTGTTCACTTGTGGCAAATGTAAAAAGAAGAACTG
CACTTACACACAGGTGCAAACTCGTAGTGCTGATGAACCAATGACAACTTTTGTTGTATGTAAT
GAATGTGGAAATCGGTGGAAGTTCTGTTGAGTTTGGAAGAATTGGCAAGGAAGCCATGCTGTGA
AGAAAATATTAGTATCTGAGTAGAGTTCCTGGAGGCAACATGACTGTACTTGCACTTGGAAACC
TACTGACCAAGGATTAAGCCTGAGAACTATGTAAATTACTAAGCTGTGCTCTTTGCATATGGAG
GATGCGAAAAAAATCCTTTAGACTGAATCTTTTGTGCTAAATTTTTTCTTACATGATGATGTCA
AGCCAACTGAAATGTAGGCCGTAGCAAGTAGTTTTACAAAACATACTTCACAATTAAGTTTTAC
TTTTGTTTAAATGTGTCCCACTTGTTTTGCTAGTACTAAGCAGTGGCTTTCACATCGTTTTCTT
GACACAGACGTCCTATTGCACAGAGCAAAGGCCACTATTTAAAGTTTACAACTTAAGTGCCTCT
GCCTGTGTTCAGACTTCTGTGTAAAGACCACTGCACAAGCTTTGCGCTCTGCTCTGCTCTGCTC
TGCTCTGCAGACCGTTTGACATAACATAGAAAACAATATGCTAAAAGGATTGGTCCATGGGTAA
TTGCTGTCACTTTAAAAATAAAGTACATTTTGAAAGAATTAGTTTAAAAGTAATAAGGTTAAAA
TAGCCCCACTTTTAAGTGATCCATTTTAAAATTTGTAAATCAATAAAATTTTTTGTTGTTAAAT
ATAA

hide sequence

RefSeq Acc Id:

XM_039110212 ⟹ XP_038966140

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	5	14,631,454 - 14,668,212 (-)	NCBI

RefSeq Acc Id:

XM_039110213 ⟹ XP_038966141

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	5	14,631,454 - 14,668,215 (-)	NCBI

RefSeq Acc Id:

XM_039110214 ⟹ XP_038966142

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	5	14,631,454 - 14,662,619 (-)	NCBI

Protein Sequences


Protein RefSeqs	NP_001020906	(Get FASTA)	NCBI Sequence Viewer
	XP_006237878	(Get FASTA)	NCBI Sequence Viewer
	XP_038966140	(Get FASTA)	NCBI Sequence Viewer
	XP_038966141	(Get FASTA)	NCBI Sequence Viewer
	XP_038966142	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAH99141	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000010893.6
	ENSRNOP00000084958
	ENSRNOP00000097722
GenBank Protein	Q4KLL0	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:

NP_001020906 ⟸ NM_001025735

- UniProtKB:

Q4KLL0 (UniProtKB/Swiss-Prot), A6K054 (UniProtKB/TrEMBL), A0A8L2Q4Y0 (UniProtKB/TrEMBL), A6JFJ2 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MEDEVVRIAKKMDKMVQKKNAAGALDLLKELKNIPMTLELLQSTRIGMSVNAIRKQSTDEEVTS
LAKSLIKSWKKLLDGPSTDKDSEEKKKEPAISSQNSPEAREESSSSSHVSSRKDETNARDTYVS
SFPRAPSTSDSVRLKCREMLAAALRTGDDYVAIGADEEELGSQIEEAIYQEIRNTDMKYKNRVR
SRISNLKDAKNPNLRKNVLCGNIPPDLFARMTAEEMASDELKEMRKNLTKEAIREHQMAKTGGT
QTDLFTCGKCKKKNCTYTQVQTRSADEPMTTFVVCNECGNRWKFC

hide sequence

RefSeq Acc Id:	XP_006237878 ⟸ XM_006237816
- Peptide Label:	isoform X1
- UniProtKB:	Q4KLL0 (UniProtKB/Swiss-Prot), A6K054 (UniProtKB/TrEMBL), A0A8L2Q4Y0 (UniProtKB/TrEMBL), A6JFJ2 (UniProtKB/TrEMBL)
- Sequence:	show sequence MEDEVVRIAKKMDKMVQKKNAAGALDLLKELKNIPMTLELLQSTRIGMSVNAIRKQSTDEEVTS LAKSLIKSWKKLLDGPSTDKDSEEKKKEPAISSQNSPEAREESSSSSHVSSRKDETNARDTYVS SFPRAPSTSDSVRLKCREMLAAALRTGDDYVAIGADEEELGSQIEEAIYQEIRNTDMKYKNRVR SRISNLKDAKNPNLRKNVLCGNIPPDLFARMTAEEMASDELKEMRKNLTKEAIREHQMAKTGGT QTDLFTCGKCKKKNCTYTQVQTRSADEPMTTFVVCNECGNRWKFC hide sequence

RefSeq Acc Id:

ENSRNOP00000010893 ⟸ ENSRNOT00000010893

RefSeq Acc Id:	XP_038966141 ⟸ XM_039110213
- Peptide Label:	isoform X2
- UniProtKB:	A0A8L2Q4Y0 (UniProtKB/TrEMBL), A6JFJ2 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_038966140 ⟸ XM_039110212
- Peptide Label:	isoform X2
- UniProtKB:	A0A8L2Q4Y0 (UniProtKB/TrEMBL), A6JFJ2 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_038966142 ⟸ XM_039110214
- Peptide Label:	isoform X2
- UniProtKB:	A0A8L2Q4Y0 (UniProtKB/TrEMBL), A6JFJ2 (UniProtKB/TrEMBL)

RefSeq Acc Id:

ENSRNOP00000084958 ⟸ ENSRNOT00000104892

Protein Domains

TFIIS central TFIIS N-terminal TFIIS-type

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-Q4KLL0-F1-model_v2	AlphaFold	Q4KLL0	1-301	view protein structure

Transcriptome

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

Promoters

RGD ID:

13693542

Promoter ID:

EPDNEW_R4067

Type:

multiple initiation site

Name:

LOC498453_1

Description:

similar to transcription elongation factor A 1 isoform 2

SO ACC ID:

SO:0000170

Source:

EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)

Experiment Methods:

Single-end sequencing.

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	5	14,548,468 - 14,548,528	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1309880	AgrOrtholog
BioCyc Gene	G2FUF-42153	BioCyc
Ensembl Genes	ENSRNOG00000005869	Ensembl, UniProtKB/Swiss-Prot
	ENSRNOG00000022323	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000007696	UniProtKB/Swiss-Prot
	ENSRNOT00000010893.7	UniProtKB/TrEMBL
	ENSRNOT00000104892	ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH	1.10.472.30	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	1.20.930.10	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	2.20.25.10	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE	IMAGE:7460791	IMAGE-MGC_LOAD
InterPro	TF_IIS-typ	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	TFIIS/CRSP70_N_sub	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	TFIIS/LEDGF_dom_sf	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	TFIIS_cen_dom	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	TFIIS_cen_dom_sf	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	TFIIS_N	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	TFSII	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Znf_TFIIS	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report	rno:362479	UniProtKB/Swiss-Prot
	rno:498453	UniProtKB/Swiss-Prot
MGC_CLONE	MGC:116288	IMAGE-MGC_LOAD
NCBI Gene	362479	ENTREZGENE
PANTHER	TRANSCRIPTION ELONGATION FACTOR A PROTEIN 1	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	TRANSCRIPTION FACTOR S-II ZINC FINGER DOMAIN-CONTAINING PROTEIN	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam	Med26	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	TFIIS_C	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	TFIIS_M	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen	Tcea1	PhenoGen
PIRSF	TF_IIS	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE	TFIIS_CENTRAL	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	TFIIS_N	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	ZF_TFIIS_1	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	ZF_TFIIS_2	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx	ENSRNOG00000005869	RatGTEx
	ENSRNOG00000022323	RatGTEx
SMART	TFS2M	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	TFS2N	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	ZnF_C2C2	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP	SSF46942	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	SSF47676	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Zinc beta-ribbon	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt	A0A8L2Q4Y0	ENTREZGENE, UniProtKB/TrEMBL
	A6JFJ2	ENTREZGENE, UniProtKB/TrEMBL
	A6K054	ENTREZGENE, UniProtKB/TrEMBL
	Q4KLL0	ENTREZGENE, UniProtKB/Swiss-Prot

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2016-02-19	Tcea1	transcription elongation factor A1	Tcea1	transcription elongation factor A (SII) 1	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2005-12-06	Tcea1	transcription elongation factor A (SII) 1	Tcea1_predicted	transcription elongation factor A (SII) 1 (predicted)	Symbol and Name updated	1559027	APPROVED
2005-01-12	Tcea1_predicted	transcription elongation factor A (SII) 1 (predicted)			Symbol and Name status set to approved	70820	APPROVED

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

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

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

Imported Disease Annotations - ClinVar

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Imported Disease Annotations - ClinVar

RGD Manual Annotations