Tbl1xr1 TBL1X/Y related 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Tbl1xr1provided by RGD
Official Full Name: TBL1X/Y related 1provided by RGD
Primary source: RGD:1560053
See related: Ensembl:ENSRNOG00000011216 AllianceGenome:RGD:1560053
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: RGD1560053
Summary: Predicted to enable several functions, including beta-catenin binding activity; protein N-terminus binding activity; and transcription corepressor activity. Predicted to be involved in histone deacetylation; positive regulation of canonical Wnt signaling pathway; and regulation of transcription by RNA polymerase II. Predicted to act upstream of or within several processes, including blastocyst hatching; fat pad development; and white fat cell differentiation. Predicted to be located in mitotic spindle and nucleus. Predicted to be part of histone deacetylase complex and transcription repressor complex. Human ortholog(s) of this gene implicated in autosomal dominant non-syndromic intellectual disability 41. Orthologous to human TBL1XR1 (TBL1X receptor 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Thymus (RPKM 235.4), Spleen (RPKM 191.9) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 2q24

Exon count:: 21

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	2	NC_086020.1 (106718811..106857989)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	2	NC_051337.1 (104788950..104929055)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	2	NC_005101.4 (107221913..107359229)

Chromosome 2 - NC_086020.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Submit: New GeneRIF Correction

General gene information

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Markers

RH140689 (e-PCR)
- UniSTS:222757

AW532079 (e-PCR)
- UniSTS:245553

RH137630 (e-PCR)
- UniSTS:219717

NoName (e-PCR)
- UniSTS:483421

D2Rat28 (e-PCR), detects polymorphism
- UniSTS:118687

RH140040 (e-PCR)
- UniSTS:222122

AI136905 (e-PCR)
- UniSTS:243935

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables DNA binding	ISO Inferred from Sequence Orthology more info
enables beta-catenin binding	ISO Inferred from Sequence Orthology more info
enables histone binding	ISO Inferred from Sequence Orthology more info
enables transcription cis-regulatory region binding	ISO Inferred from Sequence Orthology more info
enables transcription corepressor activity	IBA Inferred from Biological aspect of Ancestor more info
enables transcription corepressor activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within adipose tissue development	ISO Inferred from Sequence Orthology more info
involved_in biological_process	ND No biological Data available more info
acts_upstream_of_or_within blastocyst hatching	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within fat pad development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within lipid catabolic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within multicellular organism growth	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of canonical Wnt signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within proteasome-mediated ubiquitin-dependent protein catabolic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of gene expression	ISO Inferred from Sequence Orthology more info
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within regulation of triglyceride metabolic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within response to dietary excess	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within white fat cell differentiation	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
part_of histone deacetylase complex	IBA Inferred from Biological aspect of Ancestor more info
part_of histone deacetylase complex	ISO Inferred from Sequence Orthology more info
located_in mitotic spindle	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
part_of transcription repressor complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: F-box-like/WD repeat-containing protein TBL1XR1

Names: TBL1X receptor 1; transducin (beta)-like 1 X-linked receptor 1

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_001108941.1 → NP_001102411.1 F-box-like/WD repeat-containing protein TBL1XR1

See identical proteins and their annotated locations for NP_001102411.1

Status: PROVISIONAL

Source sequence(s)

CH473961

UniProtKB/TrEMBL

A6IHE1, D3ZNF4, G3V6G5

Related

ENSRNOP00000015573.4, ENSRNOT00000015573.5

Conserved Domains (3) summary

cd00200
Location:164 → 470

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

sd00039
Location:228 → 264

7WD40; WD40 repeat [structural motif]

pfam08513
Location:7 → 31

LisH

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

NC_086020.1 Reference GRCr8

Range

106718811..106857989

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039102745.1 → XP_038958673.1 F-box-like/WD repeat-containing protein TBL1XR1 isoform X1

UniProtKB/TrEMBL

A6IHE1, D3ZNF4, G3V6G5

Conserved Domains (3) summary

cd00200
Location:164 → 470

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

sd00039
Location:228 → 264

7WD40; WD40 repeat [structural motif]

pfam08513
Location:7 → 31

LisH
XM_039102747.1 → XP_038958675.1 F-box-like/WD repeat-containing protein TBL1XR1 isoform X2

Conserved Domains (2) summary

cd00200
Location:77 → 383

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

sd00039
Location:141 → 177

7WD40; WD40 repeat [structural motif]
XM_006232190.4 → XP_006232252.1 F-box-like/WD repeat-containing protein TBL1XR1 isoform X1

See identical proteins and their annotated locations for XP_006232252.1

UniProtKB/TrEMBL

A6IHE1, D3ZNF4, G3V6G5

Conserved Domains (3) summary

cd00200
Location:164 → 470

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

sd00039
Location:228 → 264

7WD40; WD40 repeat [structural motif]

pfam08513
Location:7 → 31

LisH
XM_039102748.1 → XP_038958676.1 F-box-like/WD repeat-containing protein TBL1XR1 isoform X2

Conserved Domains (2) summary

cd00200
Location:77 → 383

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

sd00039
Location:141 → 177

7WD40; WD40 repeat [structural motif]
XM_039102746.2 → XP_038958674.1 F-box-like/WD repeat-containing protein TBL1XR1 isoform X1

UniProtKB/TrEMBL

A6IHE1, D3ZNF4, G3V6G5

Conserved Domains (3) summary

cd00200
Location:164 → 470

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

sd00039
Location:228 → 264

7WD40; WD40 repeat [structural motif]

pfam08513
Location:7 → 31

LisH
XM_017590991.3 → XP_017446480.1 F-box-like/WD repeat-containing protein TBL1XR1 isoform X1

UniProtKB/TrEMBL

A6IHE1, D3ZNF4, G3V6G5

Conserved Domains (3) summary

cd00200
Location:164 → 470

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

sd00039
Location:228 → 264

7WD40; WD40 repeat [structural motif]

pfam08513
Location:7 → 31

LisH
XM_017590990.2 → XP_017446479.1 F-box-like/WD repeat-containing protein TBL1XR1 isoform X1

UniProtKB/TrEMBL

A6IHE1, D3ZNF4, G3V6G5

Conserved Domains (3) summary

cd00200
Location:164 → 470

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

sd00039
Location:228 → 264

7WD40; WD40 repeat [structural motif]

pfam08513
Location:7 → 31

LisH