Tceal7 (transcription elongation factor A like 7) - Rat Genome Database

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Gene: Tceal7 (transcription elongation factor A like 7) Rattus norvegicus
Analyze
Symbol: Tceal7
Name: transcription elongation factor A like 7
RGD ID: 1593009
Description: Predicted to be involved in negative regulation of DNA-templated transcription. Predicted to be located in nucleoplasm. Orthologous to human TCEAL7 (transcription elongation factor A like 7); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; acrylamide; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: hypothetical protein LOC680319; LOC680319; TCEA-like protein 7; transcription elongation factor A (SII)-like 7; transcription elongation factor A protein-like 7; transcription elongation factor S-II protein-like 7
RGD Orthologs
Human
Mouse
Chinchilla
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
GRCr8X104,020,016 - 104,022,176 (+)NCBIGRCr8
mRatBN7.2X99,228,405 - 99,230,551 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX99,228,458 - 99,230,543 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX101,357,887 - 101,359,978 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X104,868,494 - 104,870,585 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X102,425,544 - 102,427,635 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X106,774,954 - 106,777,072 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX106,774,980 - 106,777,072 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X106,353,260 - 106,355,457 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X123,537,652 - 123,539,744 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
CeleraX99,915,510 - 99,917,602 (-)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

Biological Process

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

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. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:18806825   PMID:19966855  


Genomics

Comparative Map Data
Tceal7
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X104,020,016 - 104,022,176 (+)NCBIGRCr8
mRatBN7.2X99,228,405 - 99,230,551 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX99,228,458 - 99,230,543 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX101,357,887 - 101,359,978 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X104,868,494 - 104,870,585 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X102,425,544 - 102,427,635 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X106,774,954 - 106,777,072 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX106,774,980 - 106,777,072 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X106,353,260 - 106,355,457 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X123,537,652 - 123,539,744 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
CeleraX99,915,510 - 99,917,602 (-)NCBICelera
Cytogenetic MapXq32NCBI
TCEAL7
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X103,330,239 - 103,332,326 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX103,330,229 - 103,332,326 (+)EnsemblGRCh38hg38GRCh38
GRCh37X102,585,167 - 102,587,254 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36X102,471,821 - 102,473,910 (+)NCBINCBI36Build 36hg18NCBI36
Build 34X102,391,309 - 102,393,396NCBI
CeleraX103,024,116 - 103,026,253 (+)NCBICelera
Cytogenetic MapXq22.2NCBI
HuRefX92,248,035 - 92,250,172 (+)NCBIHuRef
CHM1_1X102,478,104 - 102,480,241 (+)NCBICHM1_1
T2T-CHM13v2.0X101,777,239 - 101,779,326 (+)NCBIT2T-CHM13v2.0
Tceal7
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X135,124,790 - 135,126,849 (+)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX135,115,528 - 135,126,849 (+)EnsemblGRCm39 Ensembl
GRCm38X136,224,041 - 136,226,100 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX136,214,779 - 136,226,100 (+)EnsemblGRCm38mm10GRCm38
MGSCv37X132,758,580 - 132,760,639 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36X132,749,318 - 132,760,065 (+)NCBIMGSCv36mm8
CeleraX119,540,456 - 119,542,515 (+)NCBICelera
Cytogenetic MapXF1NCBI
cM MapX57.4NCBI
Tceal7
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_004955548467,664 - 470,196 (+)NCBIChiLan1.0ChiLan1.0
TCEAL7
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2X102,923,037 - 102,944,522 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1X102,926,653 - 102,948,127 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0X92,540,409 - 92,561,891 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1X102,938,570 - 102,940,708 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX102,939,787 - 102,940,089 (+)Ensemblpanpan1.1panPan2
TCEAL7
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X76,372,804 - 76,374,938 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaX62,911,363 - 62,914,164 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0X78,301,338 - 78,304,139 (+)NCBIROS_Cfam_1.0
UMICH_Zoey_3.1X75,778,574 - 75,781,375 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X77,470,386 - 77,473,187 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X77,232,350 - 77,235,151 (+)NCBIUU_Cfam_GSD_1.0
Tceal7
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X61,595,769 - 61,597,632 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365477,916,292 - 7,917,964 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365477,916,172 - 7,918,010 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TCEAL7
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX84,247,726 - 84,249,856 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1X84,247,651 - 84,249,858 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X98,035,879 - 98,038,043 (+)NCBISscrofa10.2Sscrofa10.2susScr3
TCEAL7
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X91,233,827 - 91,235,963 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 EnsemblX91,235,036 - 91,235,338 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366606516,091,272 - 16,093,418 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in Tceal7
3 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:141
Count of miRNA genes:100
Interacting mature miRNAs:115
Transcripts:ENSRNOT00000046091
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.    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
RH130926  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X99,230,274 - 99,230,454 (+)MAPPERmRatBN7.2
Rnor_6.0X106,776,796 - 106,776,975NCBIRnor6.0
Rnor_5.0X106,353,357 - 106,353,536UniSTSRnor5.0
RGSC_v3.4X123,539,468 - 123,539,647UniSTSRGSC3.4
CeleraX99,915,607 - 99,915,786UniSTS
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

circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High 1 1 1
Medium 28 7 10 1 2 7
Low 15 9 4 5 4 56 8 18 6
Below cutoff 30 22 8 22 18 12 15 3

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000046091   ⟹   ENSRNOP00000042856
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX99,228,458 - 99,230,543 (+)Ensembl
Rnor_6.0 EnsemblX106,774,980 - 106,777,072 (+)Ensembl
RefSeq Acc Id: NM_001109401   ⟹   NP_001102871
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X104,020,084 - 104,022,176 (+)NCBI
mRatBN7.2X99,228,459 - 99,230,551 (+)NCBI
Rnor_6.0X106,774,980 - 106,777,072 (+)NCBI
Rnor_5.0X106,353,260 - 106,355,457 (-)NCBI
RGSC_v3.4X123,537,652 - 123,539,744 (+)RGD
CeleraX99,915,510 - 99,917,602 (-)RGD
Sequence:
RefSeq Acc Id: XM_006257279   ⟹   XP_006257341
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X104,020,016 - 104,022,174 (+)NCBI
mRatBN7.2X99,228,423 - 99,230,549 (+)NCBI
Rnor_6.0X106,774,954 - 106,777,066 (+)NCBI
Rnor_5.0X106,353,260 - 106,355,457 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006257280   ⟹   XP_006257342
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X104,020,034 - 104,022,174 (+)NCBI
mRatBN7.2X99,228,405 - 99,230,549 (+)NCBI
Rnor_6.0X106,774,954 - 106,777,066 (+)NCBI
Rnor_5.0X106,353,260 - 106,355,457 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008773437   ⟹   XP_008771659
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X104,020,048 - 104,022,174 (+)NCBI
mRatBN7.2X99,228,423 - 99,230,549 (+)NCBI
Rnor_6.0X106,774,954 - 106,777,066 (+)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: NP_001102871   ⟸   NM_001109401
- UniProtKB: D3ZT37 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006257342   ⟸   XM_006257280
- Peptide Label: isoform X1
- UniProtKB: D3ZT37 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006257341   ⟸   XM_006257279
- Peptide Label: isoform X1
- UniProtKB: D3ZT37 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_008771659   ⟸   XM_008773437
- Peptide Label: isoform X1
- UniProtKB: D3ZT37 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000042856   ⟸   ENSRNOT00000046091

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZT37-F1-model_v2 AlphaFold D3ZT37 1-98 view protein structure

Transcriptome

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

Promoters
RGD ID:13701941
Promoter ID:EPDNEW_R12465
Type:single initiation site
Name:Tceal7_1
Description:transcription elongation factor A like 7
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_6.0X106,774,984 - 106,775,044EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1593009 AgrOrtholog
BioCyc Gene G2FUF-1632 BioCyc
Ensembl Genes ENSRNOG00000037645 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOG00055025462 UniProtKB/Swiss-Prot
  ENSRNOG00060022735 UniProtKB/Swiss-Prot
  ENSRNOG00065006151 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000046091 ENTREZGENE
  ENSRNOT00000046091.6 UniProtKB/Swiss-Prot
  ENSRNOT00055043944 UniProtKB/Swiss-Prot
  ENSRNOT00060039402 UniProtKB/Swiss-Prot
  ENSRNOT00065009371 UniProtKB/Swiss-Prot
InterPro TF_A-like/BEX UniProtKB/Swiss-Prot
KEGG Report rno:680319 UniProtKB/Swiss-Prot
NCBI Gene 680319 ENTREZGENE
Pfam BEX UniProtKB/Swiss-Prot
PhenoGen Tceal7 PhenoGen
RatGTEx ENSRNOG00000037645 RatGTEx
  ENSRNOG00055025462 RatGTEx
  ENSRNOG00060022735 RatGTEx
  ENSRNOG00065006151 RatGTEx
UniProt D3ZT37 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-19 Tceal7  transcription elongation factor A like 7  Tceal7  transcription elongation factor A (SII)-like 7  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-09-25 Tceal7  transcription elongation factor A (SII)-like 7  LOC680319  hypothetical protein LOC680319  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-20 LOC680319  hypothetical protein LOC680319      Symbol and Name status set to provisional 70820 PROVISIONAL