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Gene: Tcea3 (transcription elongation factor A3) Rattus norvegicus

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Symbol:

Tcea3

Name:

transcription elongation factor A3

RGD ID:

1311369

Description:

Predicted to enable DNA binding activity and zinc ion binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to be active in nucleus. Orthologous to human TCEA3 (transcription elongation factor A3); PARTICIPATES IN RNA polymerase II transcription elongation pathway; INTERACTS WITH (+)-schisandrin B; 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine.

Type:

protein-coding

RefSeq Status:

VALIDATED

Previously known as:

LOC298559; MGC108819; transcription elongation factor A (SII), 3; transcription elongation factor A protein 3

RGD Orthologs

Alliance Orthologs

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):	TCEA3 (transcription elongation factor A3)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, PhylomeDB, Treefam
Mus musculus (house mouse):	Tcea3 (transcription elongation factor A (SII), 3)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Tcea3 (transcription elongation factor A3)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	TCEA3 (transcription elongation factor A3)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	TCEA3 (transcription elongation factor A3)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Tcea3 (transcription elongation factor A3)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	TCEA3 (transcription elongation factor A3)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	TCEA3 (transcription elongation factor A3)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Tcea3 (transcription elongation factor A3)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Rattus rattus (black rat):	Tcea3 (transcription elongation factor A3)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Other homologs ²
Homo sapiens (human):	SAXO3 (stabilizer of axonemal microtubules 3)	HGNC	OMA
Alliance orthologs ³
Homo sapiens (human):	TCEA3 (transcription elongation factor A3)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Tcea3 (transcription elongation factor A (SII), 3)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	tcea3 (transcription elongation factor A (SII), 3)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OrthoFinder\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	tcea3 (transcription elongation factor A (SII), 3)	Alliance	DIOPT (Ensembl Compara\|InParanoid\|OMA\|OrthoFinder\|PANTHER\|PhylomeDB\|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\|PhylomeDB\|SonicParanoid)
Drosophila melanogaster (fruit fly):	TfIIS	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	LOC100490835	Alliance	DIOPT (Hieranoid\|InParanoid\|OrthoFinder\|PANTHER\|PhylomeDB)

Latest Assembly:

GRCr8 - GRCr8 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	5	153,760,401 - 153,792,934 (+)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	5	153,760,407 - 153,792,930 (+)	Ensembl				GRCr8
mRatBN7.2	5	148,476,941 - 148,509,452 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	5	148,476,941 - 148,509,448 (+)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	5	151,174,818 - 151,207,356 (+)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	5	152,949,112 - 152,981,646 (+)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	5	152,931,121 - 152,963,653 (+)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	5	154,598,765 - 154,634,687 (+)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	5	154,598,758 - 154,634,686 (+)	Ensembl			rn6	Rnor6.0
Rnor_5.0	5	158,368,889 - 158,402,123 (+)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	5	154,979,581 - 155,019,314 (+)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	5	146,878,675 - 146,909,628 (+)	NCBI		Celera
RGSC_v3.1	5	154,989,619 - 155,029,349 (+)	NCBI
Cytogenetic Map	5	q36	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Annotation Click to see Annotation Detail View

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(+)-schisandrin B (EXP)

1,1-dichloroethene (ISO)

1,2-dimethylhydrazine (ISO)

17beta-estradiol (EXP,ISO)

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

2,4,6-trinitrotoluene (EXP)

2,4-dibromophenyl 2,4,5-tribromophenyl ether (ISO)

2,4-dinitrotoluene (EXP)

3,3',5,5'-tetrabromobisphenol A (ISO)

4,4'-diaminodiphenylmethane (ISO)

4,4'-sulfonyldiphenol (ISO)

4-amino-2,6-dinitrotoluene (EXP)

6-propyl-2-thiouracil (EXP)

actinomycin D (ISO)

aflatoxin B1 (ISO)

all-trans-retinoic acid (ISO)

alpha-Zearalanol (EXP)

amitrole (EXP)

Aroclor 1254 (ISO)

arsane (ISO)

arsenic atom (ISO)

arsenite(3-) (ISO)

arsenous acid (ISO)

azathioprine (ISO)

benzo[a]pyrene (ISO)

benzo[b]fluoranthene (ISO)

beta-naphthoflavone (ISO)

bisphenol A (EXP,ISO)

bisphenol F (ISO)

bromobenzene (EXP)

Butylparaben (ISO)

C60 fullerene (EXP)

cadmium atom (ISO)

cadmium dichloride (ISO)

caffeine (ISO)

camptothecin (ISO)

carbon nanotube (ISO)

chrysene (ISO)

cisplatin (ISO)

clofibrate (ISO)

copper atom (ISO)

copper(0) (ISO)

copper(II) sulfate (ISO)

cyclosporin A (ISO)

deoxynivalenol (ISO)

diarsenic trioxide (ISO)

dibutyl phthalate (EXP)

dimethyl sulfoxide (ISO)

dioxygen (ISO)

endosulfan (EXP)

entinostat (ISO)

folic acid (ISO)

FR900359 (ISO)

furan (EXP)

gentamycin (EXP)

glafenine (EXP)

graphite (EXP)

inulin (ISO)

leflunomide (EXP)

lipopolysaccharide (ISO)

methimazole (EXP)

N-nitrosodiethylamine (ISO)

N-Nitrosopyrrolidine (ISO)

nickel sulfate (ISO)

Nutlin-3 (ISO)

okadaic acid (ISO)

p-toluidine (EXP)

paracetamol (EXP,ISO)

paraquat (EXP)

perfluorohexanesulfonic acid (ISO)

perfluorononanoic acid (ISO)

perfluorooctane-1-sulfonic acid (ISO)

perfluorooctanoic acid (EXP,ISO)

phenobarbital (ISO)

pirinixic acid (ISO)

potassium dichromate (ISO)

pregnenolone 16alpha-carbonitrile (ISO)

progesterone (ISO)

propanal (ISO)

propiconazole (ISO)

rotenone (EXP)

S-(1,2-dichlorovinyl)-L-cysteine (ISO)

sodium arsenate (ISO)

sodium arsenite (ISO)

sulfadimethoxine (EXP)

tetrachloromethane (EXP,ISO)

tetraphene (ISO)

thioacetamide (EXP)

titanium dioxide (ISO)

triclosan (ISO)

Triptolide (ISO)

tunicamycin (ISO)

urethane (ISO)

valproic acid (ISO)

vancomycin (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

biological_process (ND)

DNA-templated transcription (IEA)

gene expression (ISO)

transcription elongation by RNA polymerase II (IBA,IEA)

Cellular Component

nucleus (IBA,IEA,ISO)

Molecular Function

DNA binding (IEA)

metal ion binding (IEA)

nucleic acid binding (IEA)

protein binding (ISO)

transcription elongation factor activity (IBA)

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.	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.
3.	GOA pipeline	RGD automated data pipeline
4.	ClinVar Automated Import and Annotation Pipeline	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
6.	Comprehensive gene review and curation	RGD comprehensive gene curation
7.	Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences.	Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.

Additional References at PubMed

PMID:19796622

Genomics

Comparative Map Data

Tcea3
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	5	153,760,401 - 153,792,934 (+)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	5	153,760,407 - 153,792,930 (+)	Ensembl				GRCr8
mRatBN7.2	5	148,476,941 - 148,509,452 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	5	148,476,941 - 148,509,448 (+)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	5	151,174,818 - 151,207,356 (+)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	5	152,949,112 - 152,981,646 (+)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	5	152,931,121 - 152,963,653 (+)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	5	154,598,765 - 154,634,687 (+)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	5	154,598,758 - 154,634,686 (+)	Ensembl			rn6	Rnor6.0
Rnor_5.0	5	158,368,889 - 158,402,123 (+)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	5	154,979,581 - 155,019,314 (+)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	5	146,878,675 - 146,909,628 (+)	NCBI		Celera
RGSC_v3.1	5	154,989,619 - 155,029,349 (+)	NCBI
Cytogenetic Map	5	q36	NCBI

TCEA3
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	1	23,380,909 - 23,424,748 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	1	23,370,591 - 23,425,169 (-)	Ensembl			hg38	GRCh38
GRCh37	1	23,707,402 - 23,751,241 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	1	23,580,142 - 23,623,848 (-)	NCBI	Build 36	Build 36	hg18	NCBI36
Build 34	1	23,452,860 - 23,496,567	NCBI
Celera	1	22,037,208 - 22,080,967 (-)	NCBI		Celera
Cytogenetic Map	1	p36.12	NCBI
HuRef	1	21,959,616 - 22,001,758 (-)	NCBI		HuRef
CHM1_1	1	23,820,245 - 23,863,984 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	1	23,214,086 - 23,259,235 (-)	NCBI		T2T-CHM13v2.0

Tcea3
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	4	135,975,253 - 136,002,214 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	4	135,975,040 - 136,002,209 (+)	Ensembl		GRCm39 Ensembl		GRCm39
GRCm38	4	136,247,936 - 136,274,903 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	4	136,247,729 - 136,274,898 (+)	Ensembl			mm10	GRCm38
MGSCv37	4	135,803,872 - 135,830,814 (+)	NCBI	MGSCv37	MGSCv37	mm9	NCBIm37
MGSCv36	4	135,520,056 - 135,546,974 (+)	NCBI		MGSCv36	mm8
Celera	4	134,445,137 - 134,472,434 (+)	NCBI		Celera
Cytogenetic Map	4	D3	NCBI
cM Map	4	68.34	NCBI

Tcea3
(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_004955452	3,387,573 - 3,434,022 (-)	Ensembl
ChiLan1.0	NW_004955452	3,384,424 - 3,434,182 (-)	NCBI	ChiLan1.0	ChiLan1.0

TCEA3
(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	1	203,515,607 - 203,561,398 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	1	202,618,541 - 202,671,853 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	1	22,573,050 - 22,617,426 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	1	23,560,258 - 23,602,792 (-)	NCBI	PanPan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	1	23,560,258 - 23,602,792 (-)	Ensembl			panPan2	panpan1.1

TCEA3
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	2	75,998,154 - 76,040,461 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	2	75,998,214 - 76,040,413 (+)	Ensembl			canFam3	CanFam3.1
ROS_Cfam_1.0	2	76,556,188 - 76,598,943 (+)	NCBI	ROS_Cfam_1.0	ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	2	76,556,604 - 76,604,026 (+)	Ensembl				ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	2	73,378,355 - 73,420,968 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	2	74,386,018 - 74,428,707 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	2	75,390,856 - 75,433,533 (+)	NCBI	UU_Cfam_GSD_1.0	UU_Cfam_GSD_1.0

Tcea3
(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_024405058	42,777,113 - 42,817,358 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936474	8,601,869 - 8,642,304 (-)	Ensembl		SpeTri2.0 Ensembl
SpeTri2.0	NW_004936474	8,601,910 - 8,642,148 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

TCEA3
(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	81,267,359 - 81,304,602 (-)	Ensembl			susScr11	Sscrofa11.1
Sscrofa11.1	6	81,267,351 - 81,304,902 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1

TCEA3
(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	20	109,251,247 - 109,294,071 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
Vero_WHO_p1.0	NW_023666033	7,033,549 - 7,077,559 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Tcea3
(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 1.0	NW_004624764	8,020,241 - 8,072,052 (-)	NCBI	HetGla 1.0	HetGla 1.0	hetGla2

Tcea3
(Rattus rattus - black rat)

Black Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Black Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Rrattus_CSIRO_v1	1	21,957,730 - 21,990,441 (-)	NCBI		Rrattus_CSIRO_v1

Variants

Variants in Tcea3
63 total Variants

miRNA Target Status (No longer updated)

Predicted Target Of

	Summary Value
Count of predictions:	54
Count of miRNA genes:	51
Interacting mature miRNAs:	53
Transcripts:	ENSRNOT00000015776
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 (GRCr8)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
10053720	Scort26	Serum corticosterone level QTL 26	2.06	0.0147	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	5	130249266	172190305	Rat
1549845	Scl44	Serum cholesterol level QTL 44	6		blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	5	44924861	153890773	Rat
8552960	Pigfal15	Plasma insulin-like growth factor 1 level QTL 15			blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	5	116702075	161702075	Rat
1354583	Despr3	Despair related QTL3	4.98	0.0002	locomotor behavior trait (VT:0001392)	amount of time spent in voluntary immobility (CMO:0001043)	5	132930505	172190305	Rat
61444	Strs2	Sensitivity to stroke QTL 2	4.7		cerebrum integrity trait (VT:0010549)	post-insult time to onset of cerebrovascular lesion (CMO:0002343)	5	141212838	172190305	Rat
1300119	Bp180	Blood pressure QTL 180	3.82		arterial blood pressure trait (VT:2000000)	blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)	5	149642129	171146538	Rat
61452	Ciaa5	CIA Autoantibody QTL 5	3.5		blood autoantibody amount (VT:0003725)	calculated serum anti-rat type 2 collagen autoantibody titer (CMO:0001281)	5	99905133	172190305	Rat
70156	Niddm30	Non-insulin dependent diabetes mellitus QTL 30	3.98		blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	5	134369218	156289444	Rat
8552908	Pigfal4	Plasma insulin-like growth factor 1 level QTL 4	6.6		blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	5	133789363	172190305	Rat
1331803	Rf32	Renal function QTL 32	2.798		kidney blood vessel physiology trait (VT:0100012)	absolute change in renal vascular resistance (CMO:0001900)	5	134369199	172190305	Rat
61393	Bp7	Blood pressure QTL 7	4.5	0.0001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	5	65089051	166764498	Rat
7794791	Mcs33	Mammary carcinoma susceptibility QTL 33	1.93		mammary gland integrity trait (VT:0010552)	mammary tumor incidence/prevalence measurement (CMO:0000946)	5	136631198	172190305	Rat
7207486	Bss109	Bone structure and strength QTL 109			femur strength trait (VT:0010010)	femur total energy absorbed before break (CMO:0001677)	5	112142946	157142946	Rat
7207481	Bss106	Bone structure and strength QTL 106	7.9		femur strength trait (VT:0010010)	femur ultimate force (CMO:0001675)	5	112142946	157142946	Rat
1302790	Scl20	Serum cholesterol level QTL 20	6.4	0.0001	blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	5	110770739	155770739	Rat
1598861	Cm64	Cardiac mass QTL 64	2.9		heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	5	133081618	172190305	Rat
1578766	Tcas11	Tongue tumor susceptibility QTL 11	4.12		tongue integrity trait (VT:0010553)	number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)	5	51657967	166600247	Rat
631263	Cm24	Cardiac mass QTL 24	3.5		heart mass (VT:0007028)	heart left ventricle weight to body weight ratio (CMO:0000530)	5	149805999	162987697	Rat
631505	Bp103	Blood pressure QTL 103	3.2		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	5	138002522	170842766	Rat
1549838	Bss4	Bone structure and strength QTL 4	9.2		femur strength trait (VT:0010010)	femur midshaft polar moment of inertia (CMO:0001669)	5	112142946	157142946	Rat
1581505	Rf54	Renal function QTL 54			kidney physiology trait (VT:0002136)	kidney 20-HETE level (CMO:0001854)	5	133270647	172190305	Rat
2317753	Glom24	Glomerulus QTL 24	3.1		kidney glomerulus integrity trait (VT:0010546)	kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)	5	141764300	172190305	Rat
8694169	Bw148	Body weight QTL 148	5	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	5	133789363	172190305	Rat
1331721	Bp210	Blood pressure QTL 210	3.413		arterial blood pressure trait (VT:2000000)	blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)	5	148093485	172129029	Rat
1581510	Cm54	Cardiac mass QTL 54	3.4	0.05	heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	5	125969677	172190305	Rat
1576312	Emca8	Estrogen-induced mammary cancer QTL 8	4.1		mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	5	55124766	172190305	Rat
2317056	Wbc3	White blood cell count QTL 3	2.51	0.01	leukocyte quantity (VT:0000217)	white blood cell count (CMO:0000027)	5	111236572	156236572	Rat
724525	Bp147	Blood pressure QTL 147	4.3	0.0001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	5	131708216	172190305	Rat
1598847	Cm62	Cardiac mass QTL 62	3.4		heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	5	114131300	159131300	Rat
2293642	Bss37	Bone structure and strength QTL 37	4.64	0.0001	femur strength trait (VT:0010010)	femur ultimate force (CMO:0001675)	5	125969677	156302135	Rat
2313096	Bmd78	Bone mineral density QTL 78	3.1	0.0001	tibia mineral mass (VT:1000283)	total volumetric bone mineral density (CMO:0001728)	5	149661912	166600247	Rat
7207488	Bss110	Bone structure and strength QTL 1	8.4		femur strength trait (VT:0010010)	femur stiffness (CMO:0001674)	5	112142946	157142946	Rat
8694441	Bw169	Body weight QTL 169	17.61	0.001	retroperitoneal fat pad mass (VT:0010430)	retroperitoneal fat pad weight to body weight ratio (CMO:0000635)	5	116702075	161702075	Rat
7207491	Bss112	Bone structure and strength QTL 112	7		femur morphology trait (VT:0000559)	femur midshaft cortical cross-sectional area (CMO:0001663)	5	112142946	157142946	Rat
8694389	Bw160	Body weight QTL 160	6.17	0.001	body lean mass (VT:0010483)	lean tissue morphological measurement (CMO:0002184)	5	116702075	161702075	Rat
1354598	Srn6	Serum renin concentration QTL 6	3.8		blood renin amount (VT:0003349)	plasma renin activity level (CMO:0000116)	5	74335621	156302135	Rat
8694198	Abfw3	Abdominal fat weight QTL 3	16.13	0.001	visceral adipose mass (VT:0010063)	abdominal fat pad weight to body weight ratio (CMO:0000095)	5	116702075	161702075	Rat
1298089	Scl14	Serum cholesterol level QTL 14	5.8	0.0004	blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	5	114131300	159131300	Rat
1598819	Bp292	Blood pressure QTL 292	4.3		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	5	133081618	172190305	Rat
1358187	Emca1	Estrogen-induced mammary cancer QTL 1	4.4		mammary gland integrity trait (VT:0010552)	post-insult time to mammary tumor formation (CMO:0000345)	5	104262817	153890625	Rat

Markers in Region

D12Got22

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	5	148,499,252 - 148,499,491 (+)	MAPPER	mRatBN7.2
Rnor_6.0	5	154,624,563 - 154,624,801	NCBI	Rnor6.0
Rnor_5.0	5	158,391,631 - 158,391,869	UniSTS	Rnor5.0
RGSC_v3.4	5	155,003,151 - 155,003,389	UniSTS	RGSC3.4
Celera	5	146,900,298 - 146,900,536	UniSTS
Cytogenetic Map	5	q36	UniSTS

AA892930

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	5	148,475,142 - 148,475,297 (+)	MAPPER	mRatBN7.2
Rnor_6.0	5	154,596,967 - 154,597,121	NCBI	Rnor6.0
Rnor_5.0	5	158,367,091 - 158,367,245	UniSTS	Rnor5.0
RGSC_v3.4	5	154,977,783 - 154,977,937	UniSTS	RGSC3.4
Celera	5	146,876,877 - 146,877,031	UniSTS
RH 3.4 Map	5	1004.4	UniSTS
Cytogenetic Map	5	q36	UniSTS

Tcea3

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	5	148,485,902 - 148,486,862 (+)	MAPPER	mRatBN7.2
Rnor_6.0	5	154,607,731 - 154,608,690	NCBI	Rnor6.0
Rnor_5.0	5	158,377,855 - 158,378,814	UniSTS	Rnor5.0
RGSC_v3.4	5	154,988,265 - 154,989,224	UniSTS	RGSC3.4
Celera	5	146,887,642 - 146,888,588	UniSTS
Cytogenetic Map	5	q36	UniSTS

Expression

RNA-SEQ Expression

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

Download All Expressed Objects for this Gene

alimentary part of gastrointestinal system	appendage	circulatory system	ectoderm	endocrine system	endoderm	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	mesenchyme	mesoderm	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system	sensory system	visual system
16	12	67	137	91	90	59	26	59	6	290	126	11	113	81	92	31	5	5

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001015008	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063287455	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	BC091180	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473968	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000005	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSRNOT00000015776 ⟹ ENSRNOP00000015776

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	5	153,760,407 - 153,792,930 (+)	Ensembl
mRatBN7.2 Ensembl	5	148,476,941 - 148,509,448 (+)	Ensembl
Rnor_6.0 Ensembl	5	154,598,758 - 154,634,686 (+)	Ensembl

Ensembl Acc Id:

ENSRNOT00000125081 ⟹ ENSRNOP00000106611

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	5	153,760,407 - 153,792,930 (+)	Ensembl

RefSeq Acc Id:

NM_001015008 ⟹ NP_001015008

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	5	153,760,427 - 153,792,934 (+)	NCBI
mRatBN7.2	5	148,476,941 - 148,509,452 (+)	NCBI
Rnor_6.0	5	154,598,765 - 154,634,687 (+)	NCBI
Rnor_5.0	5	158,368,889 - 158,402,123 (+)	NCBI
RGSC_v3.4	5	154,979,581 - 155,019,314 (+)	RGD
Celera	5	146,878,675 - 146,909,628 (+)	RGD

Sequence:

show sequence

GTGTGTTTGCGGCCCGTGCCGCTCGCGCTTTGGCGCCCGCTGCTGCCCTGAGCCCCTAACCCCA
CCGAGCGTCGTGGACCAACATGGGCTTGGAAGAAGAGCTGCTGAGGATCGCCAAAAAACTGGAG
AAGATGGTGGCCCGGAAGAAGACGGAAGGGGCCCTGGACCTTCTGAAGAAACTGAACAGTTGCC
AGATGTCCATCCAGCTGCTACAGACCACCAGGATCGGAGTCGCTGTCAATGGAGTTCGCAAGCA
CTGCTCAGACAAGGAGGTGGTGTCCTTGGCCAAAGTCCTCATTAAAAACTGGAAGCGGCTGCTG
GATTCCCCCAGAACCACCAAAGGAGAGAGAGAAGCAAGAGAAAAAGCAAAGAAGAAGGAGAAAG
GACTCGGCTCTTCAGGCTGGAAACCAGAAGCAGGTCTTTCCCCACCAAGGAAGAAAGAAGGAGG
AGAGCCCAAAACCAGGAGAGACTCCGTAGACTCCAGGTCATCCACCACCTCCTCTCCAAAAAGG
CCTTCGCTGGAAAGATCCAACAGCAGCAGATCTAAAGTGGAAACCCCCAAGACCCCCAGCAGCC
CCTCAACTCCCACATTCGCCCCCGCTGTCTGTCTCCTGGCCTCCTGCTATCTCACCGGGGACTC
TGTCCGGGACAAGTGTGTGGAGATGCTGTCAGCCGCTCTGAAGGCGGAAGATGATTTCAAGGAC
TATGGAGTCAACTGTGACAAGCTGGCCTCAGAAATAGAAGACCATATCTACCAAGAACTCAAGA
GCACGGACATGAAGTACCGGAACCGTGTGCGCAGCCGCATCAGCAACCTGAAGGACCCCAGGAA
CCCGGGCCTGAGGCGGAACGTGCTCAGCGGGACCATCTCCCCAGAGCTCATTGCCAAGATGACA
GCCGAGGAAATGGCCAGTGACGAGCTGAGGGAGCTGAGGAACGCCATGACTCAAGAGGCCATCC
GCGAGCACCAGATGGCCAAGACAGGCGGTACCACCACTGACCTCTTGCGGTGTAGCAAGTGCAA
GAAGAAGAATTGTACCTATAACCAGGTGCAGACACGCAGTGCTGATGAGCCCATGACCACCTTT
GTCTTATGCAATGAATGTGGGAATCGCTGGAAGTTCTGCTGACTGAACCACCTGCCAGGAGAGG
AAGACGGAGCAGGAAGCACAGACCCCATGACCTGGAACAAAATAAAAGTTCAAAAGATGGAAAA
AAAAAAAAAAAAAAAAAAAAAAAA

hide sequence

RefSeq Acc Id:

XM_063287455 ⟹ XP_063143525

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	5	153,760,401 - 153,792,934 (+)	NCBI

Protein Sequences


Protein RefSeqs	NP_001015008	(Get FASTA)	NCBI Sequence Viewer
	XP_063143525	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAH91180	(Get FASTA)	NCBI Sequence Viewer
	EDL80805	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000015776
	ENSRNOP00000015776.6
	ENSRNOP00000106611.1

RefSeq Acc Id:

NP_001015008 ⟸ NM_001015008

- UniProtKB:

Q5BK74 (UniProtKB/TrEMBL), F7EY03 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MGLEEELLRIAKKLEKMVARKKTEGALDLLKKLNSCQMSIQLLQTTRIGVAVNGVRKHCSDKEV
VSLAKVLIKNWKRLLDSPRTTKGEREAREKAKKKEKGLGSSGWKPEAGLSPPRKKEGGEPKTRR
DSVDSRSSTTSSPKRPSLERSNSSRSKVETPKTPSSPSTPTFAPAVCLLASCYLTGDSVRDKCV
EMLSAALKAEDDFKDYGVNCDKLASEIEDHIYQELKSTDMKYRNRVRSRISNLKDPRNPGLRRN
VLSGTISPELIAKMTAEEMASDELRELRNAMTQEAIREHQMAKTGGTTTDLLRCSKCKKKNCTY
NQVQTRSADEPMTTFVLCNECGNRWKFC

hide sequence

Ensembl Acc Id:

ENSRNOP00000015776 ⟸ ENSRNOT00000015776

RefSeq Acc Id:	XP_063143525 ⟸ XM_063287455
- Peptide Label:	isoform X1
- UniProtKB:	Q5BK74 (UniProtKB/TrEMBL), F7EY03 (UniProtKB/TrEMBL)

Ensembl Acc Id:

ENSRNOP00000106611 ⟸ ENSRNOT00000125081

Protein Domains

TFIIS central TFIIS N-terminal TFIIS-type

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-Q5BK74-F1-model_v2	AlphaFold	Q5BK74	1-348	view protein structure

Transcriptome

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

Promoters

RGD ID:

13694171

Promoter ID:

EPDNEW_R4694

Type:

initiation region

Name:

Tcea3_1

Description:

transcription elongation factor A3

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	154,598,745 - 154,598,805	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1311369	AgrOrtholog
BioCyc Gene	G2FUF-39509	BioCyc
Ensembl Genes	ENSRNOG00000011794	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000015776	ENTREZGENE
	ENSRNOT00000015776.8	UniProtKB/TrEMBL
	ENSRNOT00000125081.1	UniProtKB/TrEMBL
Gene3D-CATH	1.10.472.30	UniProtKB/TrEMBL
	1.20.930.10	UniProtKB/TrEMBL
	2.20.25.10	UniProtKB/TrEMBL
IMAGE_CLONE	IMAGE:7325833	IMAGE-MGC_LOAD
InterPro	TF_IIS-typ	UniProtKB/TrEMBL
	TFIIS/CRSP70_N_sub	UniProtKB/TrEMBL
	TFIIS/LEDGF_domain	UniProtKB/TrEMBL
	TFIIS_cen_dom	UniProtKB/TrEMBL
	TFIIS_cen_dom_sf	UniProtKB/TrEMBL
	TFIIS_N	UniProtKB/TrEMBL
	TFSII	UniProtKB/TrEMBL
	Znf_TFIIS	UniProtKB/TrEMBL
KEGG Report	rno:298559	UniProtKB/TrEMBL
MGC_CLONE	MGC:108819	IMAGE-MGC_LOAD
NCBI Gene	298559	ENTREZGENE
PANTHER	TRANSCRIPTION ELONGATION FACTOR A PROTEIN 2	UniProtKB/TrEMBL
	TRANSCRIPTION ELONGATION FACTOR A PROTEIN 3	UniProtKB/TrEMBL
	TRANSCRIPTION FACTOR S-II ZINC FINGER DOMAIN-CONTAINING PROTEIN	UniProtKB/TrEMBL
Pfam	TFIIS	UniProtKB/TrEMBL
	TFIIS_C	UniProtKB/TrEMBL
	TFIIS_M	UniProtKB/TrEMBL
PhenoGen	Tcea3	PhenoGen
PIRSF	TF_IIS	UniProtKB/TrEMBL
PROSITE	TFIIS_CENTRAL	UniProtKB/TrEMBL
	TFIIS_N	UniProtKB/TrEMBL
	ZF_TFIIS_1	UniProtKB/TrEMBL
	ZF_TFIIS_2	UniProtKB/TrEMBL
RatGTEx	ENSRNOG00000011794	RatGTEx
SMART	TFS2M	UniProtKB/TrEMBL
	TFS2N	UniProtKB/TrEMBL
	ZnF_C2C2	UniProtKB/TrEMBL
Superfamily-SCOP	TFIIS_centre	UniProtKB/TrEMBL
	TFIIS_conserved	UniProtKB/TrEMBL
	Zinc beta-ribbon	UniProtKB/TrEMBL
UniProt	A0ABK0LP25_RAT	UniProtKB/TrEMBL
	A6ITA4_RAT	UniProtKB/TrEMBL
	F7EY03	ENTREZGENE, UniProtKB/TrEMBL
	Q5BK74	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2016-02-19	Tcea3	transcription elongation factor A3	Tcea3	transcription elongation factor A (SII), 3	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2005-12-06	Tcea3	transcription elongation factor A (SII), 3	Tcea3_predicted	transcription elongation factor A (SII), 3 (predicted)	Symbol and Name updated	1559027	APPROVED
2005-01-12	Tcea3_predicted	transcription elongation factor A (SII), 3 (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)

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RGD Manual Annotations