Tceal1 (transcription elongation factor A like 1) - Rat Genome Database

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Gene: Tceal1 (transcription elongation factor A like 1) Rattus norvegicus
Analyze
Symbol: Tceal1
Name: transcription elongation factor A like 1
RGD ID: 1549724
Description: Predicted to be located in nucleus. Orthologous to human TCEAL1 (transcription elongation factor A like 1); INTERACTS WITH 17beta-estradiol; 6-propyl-2-thiouracil; amitrole.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: MGC105656; TCEA-like protein 1; transcription elongation factor A (SII)-like 1; transcription elongation factor A protein-like 1; transcription elongation factor S-II protein-like 1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X104,850,775 - 104,852,724 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 EnsemblX104,850,136 - 104,853,085 (+)EnsemblGRCr8
mRatBN7.2X100,058,485 - 100,060,439 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX100,058,132 - 100,060,551 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_UtxX102,188,693 - 102,190,604 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X105,687,372 - 105,689,283 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X103,256,541 - 103,258,452 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X107,370,351 - 107,372,347 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX107,370,431 - 107,372,338 (+)Ensemblrn6Rnor6.0
Rnor_5.0X107,254,125 - 107,256,106 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4X124,358,772 - 124,360,683 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
CeleraX100,893,593 - 100,895,504 (+)NCBICelera
Cytogenetic MapXq32NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
nucleoplasm  (IEA,ISO)
nucleus  (IEA,ISO)

Molecular Function

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. GOA pipeline RGD automated data pipeline
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
4. 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:15489334   PMID:22871113  


Genomics

Comparative Map Data
Tceal1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X104,850,775 - 104,852,724 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 EnsemblX104,850,136 - 104,853,085 (+)EnsemblGRCr8
mRatBN7.2X100,058,485 - 100,060,439 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX100,058,132 - 100,060,551 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_UtxX102,188,693 - 102,190,604 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X105,687,372 - 105,689,283 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X103,256,541 - 103,258,452 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X107,370,351 - 107,372,347 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX107,370,431 - 107,372,338 (+)Ensemblrn6Rnor6.0
Rnor_5.0X107,254,125 - 107,256,106 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4X124,358,772 - 124,360,683 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
CeleraX100,893,593 - 100,895,504 (+)NCBICelera
Cytogenetic MapXq32NCBI
TCEAL1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X103,628,716 - 103,630,953 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX103,628,701 - 103,630,958 (+)Ensemblhg38GRCh38
GRCh37X102,883,644 - 102,885,881 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36X102,770,304 - 102,772,537 (+)NCBIBuild 36Build 36hg18NCBI36
Build 34X102,690,036 - 102,692,019NCBI
CeleraX103,322,671 - 103,324,904 (+)NCBICelera
Cytogenetic MapXq22.2NCBI
HuRefX92,540,698 - 92,542,901 (+)NCBIHuRef
CHM1_1X102,776,668 - 102,778,901 (+)NCBICHM1_1
T2T-CHM13v2.0X102,075,709 - 102,077,946 (+)NCBIT2T-CHM13v2.0
Tceal1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X135,608,731 - 135,610,622 (+)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX135,608,731 - 135,612,227 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm38X136,707,982 - 136,709,873 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX136,707,982 - 136,711,478 (+)Ensemblmm10GRCm38
MGSCv37X133,242,604 - 133,244,407 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36X132,054,429 - 132,056,232 (+)NCBIMGSCv36mm8
CeleraX119,991,546 - 119,993,344 (+)NCBICelera
Cytogenetic MapXF1NCBI
cM MapX59.1NCBI
Tceal1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_004955548655,219 - 655,671 (+)NCBIChiLan1.0ChiLan1.0
TCEAL1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2X103,234,850 - 103,242,440 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1X103,243,531 - 103,246,058 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0X92,855,974 - 92,859,868 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1X103,224,389 - 103,240,866 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX103,239,842 - 103,240,318 (+)EnsemblpanPan2panpan1.1
TCEAL1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X77,054,291 - 77,056,337 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX77,055,328 - 77,055,807 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_TashaX63,283,268 - 63,285,311 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0X78,673,038 - 78,675,081 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 EnsemblX78,673,071 - 78,675,522 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1X76,150,388 - 76,152,431 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X77,837,199 - 77,839,242 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X77,604,260 - 77,606,303 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Tceal1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X76,984,213 - 76,986,416 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493649910,671,595 - 10,673,431 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_00493649910,671,607 - 10,673,712 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TCEAL1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX84,519,005 - 84,521,009 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1X84,518,999 - 84,521,020 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X98,307,759 - 98,309,815 (+)NCBISscrofa10.2Sscrofa10.2susScr3
TCEAL1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X91,523,596 - 91,526,147 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 EnsemblX91,525,115 - 91,525,594 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_0236688333,469 - 5,696 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Tceal1
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1X88,465,727 - 88,467,657 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Tceal1
7 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:461
Count of miRNA genes:239
Interacting mature miRNAs:287
Transcripts:ENSRNOT00000044372
Prediction methods:Microtar, Miranda, Pita, 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.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1598872Memor14Memory QTL 144.5exploratory behavior trait (VT:0010471)difference between duration of physical contact or close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X97528096142528096Rat
61430Cia18Collagen induced arthritis QTL 183.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X80434318125434318Rat
738029Stresp2Stress response QTL 23.40.0004stress-related behavior trait (VT:0010451)defensive burying - approachX92979612117740458Rat
738035Stresp1Stress response QTL 14.960.000011stress-related behavior trait (VT:0010451)defensive burying - copingX45182909117740458Rat
2302047Pia34Pristane induced arthritis QTL 345.80.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)1996916163141916163Rat

Markers in Region
RH143192  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X100,060,275 - 100,060,407 (+)MAPPERmRatBN7.2
Rnor_6.0X107,372,184 - 107,372,315NCBIRnor6.0
Rnor_5.0X107,255,943 - 107,256,074UniSTSRnor5.0
RGSC_v3.4X124,360,525 - 124,360,656UniSTSRGSC3.4
CeleraX100,895,346 - 100,895,477UniSTS
Cytogenetic MapXq35UniSTS


Expression

RNA-SEQ Expression

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 67 165 91 90 59 78 59 6 342 178 11 144 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000044372   ⟹   ENSRNOP00000049958
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 EnsemblX104,850,775 - 104,853,085 (+)Ensembl
mRatBN7.2 EnsemblX100,058,510 - 100,060,551 (+)Ensembl
Rnor_6.0 EnsemblX107,370,431 - 107,372,338 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000103148   ⟹   ENSRNOP00000087064
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 EnsemblX104,850,136 - 104,852,979 (+)Ensembl
mRatBN7.2 EnsemblX100,058,757 - 100,060,521 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000104212   ⟹   ENSRNOP00000076536
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 EnsemblX104,850,549 - 104,852,728 (+)Ensembl
mRatBN7.2 EnsemblX100,058,132 - 100,060,438 (+)Ensembl
RefSeq Acc Id: NM_001009675   ⟹   NP_001009675
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X104,850,813 - 104,852,724 (+)NCBI
mRatBN7.2X100,058,523 - 100,060,434 (+)NCBI
Rnor_6.0X107,370,431 - 107,372,342 (+)NCBI
Rnor_5.0X107,254,125 - 107,256,106 (+)NCBI
RGSC_v3.4X124,358,772 - 124,360,683 (+)RGD
CeleraX100,893,593 - 100,895,504 (+)RGD
Sequence:
RefSeq Acc Id: XM_008773413   ⟹   XP_008771635
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X104,851,257 - 104,852,724 (+)NCBI
mRatBN7.2X100,058,747 - 100,060,439 (+)NCBI
Rnor_6.0X107,370,654 - 107,372,347 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008773414   ⟹   XP_008771636
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X104,850,775 - 104,852,724 (+)NCBI
mRatBN7.2X100,058,485 - 100,060,439 (+)NCBI
Rnor_6.0X107,370,421 - 107,372,347 (+)NCBI
Sequence:
RefSeq Acc Id: NP_001009675   ⟸   NM_001009675
- UniProtKB: Q5PPP3 (UniProtKB/Swiss-Prot),   A6KNT1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008771636   ⟸   XM_008773414
- Peptide Label: isoform X1
- UniProtKB: Q5PPP3 (UniProtKB/Swiss-Prot),   A6KNT1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008771635   ⟸   XM_008773413
- Peptide Label: isoform X1
- UniProtKB: Q5PPP3 (UniProtKB/Swiss-Prot),   A6KNT1 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000049958   ⟸   ENSRNOT00000044372
Ensembl Acc Id: ENSRNOP00000076536   ⟸   ENSRNOT00000104212
Ensembl Acc Id: ENSRNOP00000087064   ⟸   ENSRNOT00000103148

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q5PPP3-F1-model_v2 AlphaFold Q5PPP3 1-165 view protein structure

Transcriptome

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

Promoters
RGD ID:13701945
Promoter ID:EPDNEW_R12468
Type:multiple initiation site
Name:Tceal1_1
Description:transcription elongation factor A like 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0X107,370,430 - 107,370,490EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1549724 AgrOrtholog
BioCyc Gene G2FUF-1615 BioCyc
Ensembl Genes ENSRNOG00000002387 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000044372 ENTREZGENE
  ENSRNOT00000044372.4 UniProtKB/Swiss-Prot
  ENSRNOT00000103148 ENTREZGENE
  ENSRNOT00000103148.1 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7302183 IMAGE-MGC_LOAD
InterPro TF_A-like/BEX UniProtKB/Swiss-Prot
KEGG Report rno:302593 UniProtKB/Swiss-Prot
MGC_CLONE MGC:105656 IMAGE-MGC_LOAD
NCBI Gene 302593 ENTREZGENE
Pfam BEX UniProtKB/Swiss-Prot
PhenoGen Tceal1 PhenoGen
RatGTEx ENSRNOG00000002387 RatGTEx
UniProt A0A8I5Y049_RAT UniProtKB/TrEMBL
  A6KNT1 ENTREZGENE, UniProtKB/TrEMBL
  Q5PPP3 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-19 Tceal1  transcription elongation factor A like 1  Tceal1  transcription elongation factor A (SII)-like 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-09-15 Tceal1  transcription elongation factor A (SII)-like 1      Symbol and Name status set to provisional 70820 PROVISIONAL