Tceal5 (transcription elongation factor A like 5) - Rat Genome Database

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Gene: Tceal5 (transcription elongation factor A like 5) Rattus norvegicus
Analyze
Symbol: Tceal5
Name: transcription elongation factor A like 5
RGD ID: 1594149
Description: Orthologous to several human genes including TCEAL5 (transcription elongation factor A like 5); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran; 4,4'-sulfonyldiphenol.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: hypothetical protein LOC680282; LOC680282; transcription elongation factor A (SII)-like 5; transcription elongation factor A protein-like 5
RGD Orthologs
Human
Mouse
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X103,996,047 - 103,998,937 (-)NCBIGRCr8
mRatBN7.2X99,204,422 - 99,207,373 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX99,204,429 - 99,207,353 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX101,333,850 - 101,336,740 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X104,844,457 - 104,847,347 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X102,401,507 - 102,404,397 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X106,746,456 - 106,749,618 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX106,746,701 - 106,747,303 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X106,377,398 - 106,380,683 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X123,513,735 - 123,516,622 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
CeleraX99,937,884 - 99,940,774 (+)NCBICelera
Cytogenetic MapXq32NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

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. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
Tceal5
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X103,996,047 - 103,998,937 (-)NCBIGRCr8
mRatBN7.2X99,204,422 - 99,207,373 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX99,204,429 - 99,207,353 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX101,333,850 - 101,336,740 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X104,844,457 - 104,847,347 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X102,401,507 - 102,404,397 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X106,746,456 - 106,749,618 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX106,746,701 - 106,747,303 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X106,377,398 - 106,380,683 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X123,513,735 - 123,516,622 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
CeleraX99,937,884 - 99,940,774 (+)NCBICelera
Cytogenetic MapXq32NCBI
TCEAL5
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X103,273,691 - 103,276,750 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX103,273,691 - 103,276,750 (-)EnsemblGRCh38hg38GRCh38
GRCh37X102,528,619 - 102,531,678 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36X102,415,275 - 102,418,456 (-)NCBINCBI36Build 36hg18NCBI36
CeleraX102,967,625 - 102,970,804 (-)NCBICelera
Cytogenetic MapXq22.1NCBI
HuRefX92,191,856 - 92,195,035 (-)NCBIHuRef
CHM1_1X102,421,610 - 102,424,789 (-)NCBICHM1_1
T2T-CHM13v2.0X101,720,668 - 101,723,727 (-)NCBIT2T-CHM13v2.0
Tceal5
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X135,101,697 - 135,104,633 (-)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX135,101,697 - 135,104,625 (-)EnsemblGRCm39 Ensembl
GRCm38X136,200,948 - 136,203,884 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX136,200,948 - 136,203,876 (-)EnsemblGRCm38mm10GRCm38
MGSCv37X132,735,490 - 132,738,390 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36X131,547,315 - 131,550,217 (-)NCBIMGSCv36mm8
CeleraX119,517,304 - 119,520,204 (-)NCBICelera
Cytogenetic MapXF1NCBI
cM MapX57.4NCBI
TCEAL5
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2X102,885,931 - 102,889,101 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1X102,889,536 - 102,892,702 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0X92,503,285 - 92,506,447 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1X102,882,071 - 102,885,248 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX102,882,323 - 102,882,943 (-)Ensemblpanpan1.1panPan2
TCEAL5
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X76,407,600 - 76,410,859 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaX62,875,037 - 62,878,245 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0X78,264,964 - 78,268,172 (-)NCBIROS_Cfam_1.0
UMICH_Zoey_3.1X75,742,218 - 75,745,425 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X77,434,079 - 77,437,288 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X77,195,826 - 77,199,035 (-)NCBIUU_Cfam_GSD_1.0
LOC101973535
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X61,637,402 - 61,640,572 (+)NCBIHiC_Itri_2
SpeTri2.0NW_0049365477,957,730 - 7,960,984 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TCEAL5
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1X84,192,480 - 84,193,013 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X97,980,589 - 97,983,513 (-)NCBISscrofa10.2Sscrofa10.2susScr3
TCEAL5
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X91,182,641 - 91,185,671 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 EnsemblX91,182,895 - 91,183,515 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366606516,040,072 - 16,043,174 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in Tceal5
2 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:44
Count of miRNA genes:42
Interacting mature miRNAs:44
Transcripts:ENSRNOT00000073529
Prediction methods: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.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61430Cia18Collagen induced arthritis QTL 183.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X14843113120568734Rat
1598837Memor13Memory QTL 133.2exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X41052407146860749Rat
738035Stresp1Stress response QTL 14.960.000011stress-related behavior trait (VT:0010451)defensive burying - copingX41304447112935181Rat
61431Cia19Collagen induced arthritis QTL 194.4joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X65612192120568734Rat
724551Glom1Glomerulus QTL 12.80.0004kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)X75294106120294106Rat
1598872Memor14Memory QTL 144.5exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X93956491138956491Rat

Markers in Region
UniSTS:493116  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_5.0X106,378,886 - 106,380,539UniSTSRnor5.0
CeleraX99,939,249 - 99,940,630UniSTS
Cytogenetic MapXq35UniSTS


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 12 1 3 44 1
Low 24 16 16 16 7 8 30 23 29 4 7
Below cutoff 3 7 13 9 7 9 6 9 6

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000073529   ⟹   ENSRNOP00000067698
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX99,204,429 - 99,207,094 (-)Ensembl
Rnor_6.0 EnsemblX106,746,701 - 106,747,303 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000094474   ⟹   ENSRNOP00000091887
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX99,204,431 - 99,207,353 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000108015   ⟹   ENSRNOP00000097191
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX99,204,430 - 99,207,353 (-)Ensembl
RefSeq Acc Id: NM_001329156   ⟹   NP_001316085
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X103,996,047 - 103,998,937 (-)NCBI
mRatBN7.2X99,204,422 - 99,207,312 (-)NCBI
Rnor_6.0X106,746,456 - 106,749,618 (-)NCBI
CeleraX99,937,884 - 99,940,774 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039100051   ⟹   XP_038955979
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X103,996,054 - 103,998,680 (-)NCBI
mRatBN7.2X99,204,429 - 99,206,912 (-)NCBI
RefSeq Acc Id: XM_039100053   ⟹   XP_038955981
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X103,996,054 - 103,998,642 (-)NCBI
mRatBN7.2X99,204,429 - 99,207,015 (-)NCBI
RefSeq Acc Id: XM_039100054   ⟹   XP_038955982
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X103,996,054 - 103,998,723 (-)NCBI
mRatBN7.2X99,204,429 - 99,207,096 (-)NCBI
RefSeq Acc Id: XM_039100055   ⟹   XP_038955983
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X103,996,054 - 103,998,253 (-)NCBI
mRatBN7.2X99,204,429 - 99,206,627 (-)NCBI
RefSeq Acc Id: XM_039100056   ⟹   XP_038955984
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X103,996,054 - 103,998,531 (-)NCBI
mRatBN7.2X99,204,429 - 99,206,906 (-)NCBI
RefSeq Acc Id: XM_039100057   ⟹   XP_038955985
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X103,996,054 - 103,998,643 (-)NCBI
mRatBN7.2X99,204,429 - 99,207,024 (-)NCBI
Reference Protein Sequences
RefSeq Acc Id: NP_001316085   ⟸   NM_001329156
- UniProtKB: M0RDJ7 (UniProtKB/TrEMBL),   A6KT23 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000067698   ⟸   ENSRNOT00000073529
RefSeq Acc Id: XP_038955982   ⟸   XM_039100054
- Peptide Label: isoform X2
- UniProtKB: M0RDJ7 (UniProtKB/TrEMBL),   A6KT23 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038955985   ⟸   XM_039100057
- Peptide Label: isoform X2
- UniProtKB: M0RDJ7 (UniProtKB/TrEMBL),   A6KT23 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038955981   ⟸   XM_039100053
- Peptide Label: isoform X2
- UniProtKB: M0RDJ7 (UniProtKB/TrEMBL),   A6KT23 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038955979   ⟸   XM_039100051
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038955984   ⟸   XM_039100056
- Peptide Label: isoform X2
- UniProtKB: M0RDJ7 (UniProtKB/TrEMBL),   A6KT23 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038955983   ⟸   XM_039100055
- Peptide Label: isoform X2
- UniProtKB: M0RDJ7 (UniProtKB/TrEMBL),   A6KT23 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSRNOP00000097191   ⟸   ENSRNOT00000108015
RefSeq Acc Id: ENSRNOP00000091887   ⟸   ENSRNOT00000094474

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-M0RDJ7-F1-model_v2 AlphaFold M0RDJ7 1-200 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1594149 AgrOrtholog
BioCyc Gene G2FUF-1634 BioCyc
Ensembl Genes ENSRNOG00000046280 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000073529.2 UniProtKB/TrEMBL
  ENSRNOT00000094474 ENTREZGENE
  ENSRNOT00000094474.1 UniProtKB/TrEMBL
  ENSRNOT00000108015.1 UniProtKB/TrEMBL
InterPro TF_A-like/BEX-like UniProtKB/TrEMBL
KEGG Report rno:680282 UniProtKB/TrEMBL
NCBI Gene 680282 ENTREZGENE
Pfam BEX UniProtKB/TrEMBL
PhenoGen Tceal5 PhenoGen
RatGTEx ENSRNOG00000046280 RatGTEx
UniProt A6KT23 ENTREZGENE, UniProtKB/TrEMBL
  M0RDJ7 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-19 Tceal5  transcription elongation factor A like 5  Tceal5  transcription elongation factor A (SII)-like 5  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-09-25 Tceal5  transcription elongation factor A (SII)-like 5  LOC680282  hypothetical protein LOC680282  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-01-09 LOC680282  hypothetical protein LOC680282  LOC678833  similar to transcription elongation factor A (SII)-like 5  Data merged from RGD:1595584 1643240 APPROVED
2006-11-20 LOC680282  hypothetical protein LOC680282      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-20 LOC678833  similar to transcription elongation factor A (SII)-like 5      Symbol and Name status set to provisional 70820 PROVISIONAL