Tle6 (TLE family member 6, subcortical maternal complex member) - Rat Genome Database

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Gene: Tle6 (TLE family member 6, subcortical maternal complex member) Rattus norvegicus
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Symbol: Tle6
Name: TLE family member 6, subcortical maternal complex member
RGD ID: 1561530
Description: Predicted to enable transcription corepressor activity. Predicted to be involved in several processes, including cytoskeleton organization; embryonic process involved in female pregnancy; and spermatogonial cell division. Predicted to act upstream of or within positive regulation of neurogenesis and positive regulation of neuron differentiation. Predicted to be located in cell cortex. Predicted to be part of subcortical maternal complex and transcription regulator complex. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in infertility. Orthologous to human TLE6 (TLE family member 6, subcortical maternal complex member); INTERACTS WITH 17beta-estradiol; 17beta-estradiol 3-benzoate; bisphenol A.
Type: protein-coding
RefSeq Status: MODEL
Previously known as: LOC299637; RGD1561530; similar to Tle6 protein; transducin-like enhancer of split 6; transducin-like enhancer of split 6 (E(sp1) homolog, Drosophila); transducin-like enhancer protein 6
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.278,107,050 - 8,118,639 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl78,107,207 - 8,118,639 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.0710,964,136 - 10,988,127 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl710,962,330 - 10,988,137 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0711,133,166 - 11,155,220 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.479,582,621 - 9,591,827 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera76,299,927 - 6,309,683 (+)NCBICelera
Cytogenetic Map7q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

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:16314515   PMID:18191828   PMID:18804437   PMID:19376971   PMID:26537248  


Genomics

Comparative Map Data
Tle6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.278,107,050 - 8,118,639 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl78,107,207 - 8,118,639 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.0710,964,136 - 10,988,127 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl710,962,330 - 10,988,137 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0711,133,166 - 11,155,220 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.479,582,621 - 9,591,827 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera76,299,927 - 6,309,683 (+)NCBICelera
Cytogenetic Map7q11NCBI
TLE6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38192,977,401 - 2,995,179 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl192,977,538 - 2,995,179 (+)EnsemblGRCh38hg38GRCh38
GRCh37192,977,562 - 2,995,177 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36192,928,562 - 2,946,176 (+)NCBINCBI36Build 36hg18NCBI36
Build 34192,928,561 - 2,946,176NCBI
Celera192,911,604 - 2,929,249 (+)NCBICelera
Cytogenetic Map19p13.3NCBI
HuRef192,745,089 - 2,762,613 (+)NCBIHuRef
CHM1_1192,977,119 - 2,995,109 (+)NCBICHM1_1
T2T-CHM13v2.0192,951,060 - 2,968,675 (+)NCBIT2T-CHM13v2.0
Tle6
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391081,426,738 - 81,437,021 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1081,426,738 - 81,436,907 (-)EnsemblGRCm39 Ensembl
GRCm381081,590,904 - 81,601,185 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1081,590,904 - 81,601,073 (-)EnsemblGRCm38mm10GRCm38
MGSCv371081,053,650 - 81,063,645 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361080,994,034 - 81,004,029 (-)NCBIMGSCv36mm8
Celera1082,614,086 - 82,624,081 (-)NCBICelera
Cytogenetic Map10C1NCBI
Tle6
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049554955,367,237 - 5,369,601 (-)NCBIChiLan1.0ChiLan1.0
TLE6
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1192,953,184 - 2,978,179 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl192,953,184 - 2,978,179 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0192,003,011 - 2,020,577 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
TLE6
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12056,159,045 - 56,169,740 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2055,956,718 - 55,967,584 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02056,891,741 - 56,902,431 (-)NCBIROS_Cfam_1.0
UMICH_Zoey_3.12055,946,809 - 55,957,461 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02056,430,998 - 56,441,644 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02056,629,592 - 56,640,312 (-)NCBIUU_Cfam_GSD_1.0
Tle6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118216,116,827 - 216,126,808 (-)NCBIHiC_Itri_2
SpeTri2.0NW_0049365881,708,013 - 1,717,956 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TLE6
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1275,537,641 - 75,550,676 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2276,058,662 - 76,063,092 (-)NCBISscrofa10.2Sscrofa10.2susScr3
TLE6
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.162,750,838 - 2,768,451 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl62,751,525 - 2,768,269 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660815,817,283 - 5,834,667 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Tle6
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248286,149,869 - 6,157,875 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Tle6
60 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:123
Count of miRNA genes:77
Interacting mature miRNAs:83
Transcripts:ENSRNOT00000008360, ENSRNOT00000075263
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
2298550Neuinf6Neuroinflammation QTL 63.3nervous system integrity trait (VT:0010566)spinal cord RT1-B protein level (CMO:0002132)7127829089Rat
7411566Bw136Body weight QTL 13610.40.001body mass (VT:0001259)body weight gain (CMO:0000420)7131962314Rat
9590142Scort5Serum corticosterone level QTL 524.40.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)7131962314Rat
724560Plsm3Polydactyly-luxate syndrome (PLS) morphotypes QTL 30.0003tibia length (VT:0004357)tibia length (CMO:0000450)7134000259Rat
2317047Wbc4White blood cell count QTL 40.01leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)7135342956Rat
61410Bw19Body weight QTL 196.20.001body mass (VT:0001259)body weight (CMO:0000012)7144782185Rat
631503Bp102Blood pressure QTL 1021.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7144822433Rat
1300176Hrtrt10Heart rate QTL 103.19heart pumping trait (VT:2000009)heart rate (CMO:0000002)766427026029351Rat
634336Anxrr17Anxiety related response QTL 173.66locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)7924703115097879Rat
10755438Coatc9Coat color QTL 90coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)7352928048529280Rat
9590102Sffal5Serum free fatty acids level QTL 58.620.001blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)7532901950329019Rat
10755440Coatc10Coat color QTL 100coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)7749649952496499Rat
10059592Kidm45Kidney mass QTL 453.950.025kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)7757398552573985Rat


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 4 14 22
Low 2 35 31 23 7 23 69 21 19 11
Below cutoff 1 4 21 18 7 18 8 9 5 8

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000008360   ⟹   ENSRNOP00000008360
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl78,107,207 - 8,118,639 (+)Ensembl
Rnor_6.0 Ensembl710,962,330 - 10,988,137 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000109747   ⟹   ENSRNOP00000081779
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl78,113,541 - 8,118,639 (+)Ensembl
RefSeq Acc Id: XM_006241027   ⟹   XP_006241089
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.278,108,902 - 8,118,639 (+)NCBI
Rnor_6.0710,964,141 - 10,988,127 (+)NCBI
Rnor_5.0711,133,166 - 11,155,220 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006241030   ⟹   XP_006241092
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.278,108,902 - 8,118,639 (+)NCBI
Rnor_6.0710,964,136 - 10,988,127 (+)NCBI
Rnor_5.0711,133,166 - 11,155,220 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017595153   ⟹   XP_017450642
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.278,112,272 - 8,118,639 (+)NCBI
Rnor_6.0710,967,507 - 10,988,127 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039080433   ⟹   XP_038936361
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.278,107,050 - 8,118,639 (+)NCBI
RefSeq Acc Id: XM_039080434   ⟹   XP_038936362
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.278,112,538 - 8,118,639 (+)NCBI
Reference Sequences
RefSeq Acc Id: XP_006241092   ⟸   XM_006241030
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_006241089   ⟸   XM_006241027
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017450642   ⟸   XM_017595153
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: ENSRNOP00000008360   ⟸   ENSRNOT00000008360
RefSeq Acc Id: XP_038936361   ⟸   XM_039080433
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038936362   ⟸   XM_039080434
- Peptide Label: isoform X3
RefSeq Acc Id: ENSRNOP00000081779   ⟸   ENSRNOT00000109747

Transcriptome

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

Promoters
RGD ID:13694971
Promoter ID:EPDNEW_R5490
Type:single initiation site
Name:Tle6_1
Description:transducin-like enhancer of split 6
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_6.0710,962,353 - 10,962,413EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1561530 AgrOrtholog
BioCyc Gene G2FUF-35042 BioCyc
Ensembl Genes ENSRNOG00000006350 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000008360 ENTREZGENE
  ENSRNOP00000008360.8 UniProtKB/TrEMBL
  ENSRNOP00000081779 ENTREZGENE
  ENSRNOP00000081779.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000008360 ENTREZGENE
  ENSRNOT00000008360.9 UniProtKB/TrEMBL
  ENSRNOT00000109747 ENTREZGENE
  ENSRNOT00000109747.1 UniProtKB/TrEMBL
Gene3D-CATH 2.130.10.10 UniProtKB/TrEMBL
InterPro Groucho_enhance UniProtKB/TrEMBL
  Quinoprotein_ADH-like_supfam UniProtKB/TrEMBL
  WD40/YVTN_repeat-like_dom UniProtKB/TrEMBL
  WD40_repeat UniProtKB/TrEMBL
  WD40_repeat_dom_sf UniProtKB/TrEMBL
NCBI Gene 299637 ENTREZGENE
PANTHER PTHR10814 UniProtKB/TrEMBL
Pfam WD40 UniProtKB/TrEMBL
PhenoGen Tle6 PhenoGen
PRINTS GROUCHOFAMLY UniProtKB/TrEMBL
PROSITE WD_REPEATS_2 UniProtKB/TrEMBL
SMART WD40 UniProtKB/TrEMBL
Superfamily-SCOP SSF50998 UniProtKB/TrEMBL
  WD40_like UniProtKB/TrEMBL
UniProt A0A8I5ZVQ7_RAT UniProtKB/TrEMBL
  F1LXS4_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2018-12-04 Tle6  TLE family member 6, subcortical maternal complex member  Tle6  transducin-like enhancer of split 6  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2014-03-13 Tle6  transducin-like enhancer of split 6  Tle6  transducin-like enhancer of split 6 (E(sp1) homolog, Drosophila)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2013-11-25 Tle6  transducin-like enhancer of split 6 (E(sp1) homolog, Drosophila)  RGD1561530  similar to Tle6 protein  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1561530  similar to Tle6 protein   RGD1561530_predicted  similar to Tle6 protein (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-07 RGD1561530_predicted  similar to Tle6 protein (predicted)  LOC299637  similar to Tle6 protein  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC299637  similar to Tle6 protein      Symbol and Name status set to provisional 70820 PROVISIONAL