thrb thyroid hormone receptor beta [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: thrbprovided by ZNC
Official Full Name: thyroid hormone receptor betaprovided by ZNC
Primary source: ZFIN:ZDB-GENE-990415-268
See related: Ensembl:ENSDARG00000021163 AllianceGenome:ZFIN:ZDB-GENE-990415-268
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: trb; thr2; NR1A2; TR[b]1; TR-beta; fj24f03; wu:fj24f03
Summary: Enables nuclear receptor activity. Acts upstream of or within regulation of transcription, DNA-templated; sensory organ development; and thyroid hormone mediated signaling pathway. Predicted to be located in nucleus. Is expressed in several structures, including brain; eye; gonad; liver; and optic vesicle. Used to study thyroid hormone resistance syndrome. Human ortholog(s) of this gene implicated in several diseases, including breast cancer (multiple); cervix uteri carcinoma in situ; renal cell carcinoma; selective pituitary thyroid hormone resistance; and thyroid hormone resistance syndrome. Orthologous to human THRB (thyroid hormone receptor beta). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 19

Exon count:: 14

Annotation release	Status	Assembly	Chr	Location
106	current	GRCz11 (GCF_000002035.6)	19	NC_007130.7 (17518055..17658190, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	19	NC_007130.6 (18059288..18199626, complement)

Chromosome 19 - NC_007130.7 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: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
BioProject: PRJEB1986
Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Thyroid hormone receptor beta mutations alter photoreceptor development and function in Danio rerio (zebrafish).
Title: Thyroid hormone receptor beta mutations alter photoreceptor development and function in Danio rerio (zebrafish).
TRbeta2-46 is an oncogenic thyroid hormone receptor isoform that promotes SKP2 expression and SKP2-dependent retinoblastoma cell proliferation.
Title: A novel thyroid hormone receptor isoform, TRβ2-46, promotes SKP2 expression and retinoblastoma cell proliferation.
Data provide evidence that zebrafish represents a valid model to study in vivo the thyroid hormone (TH) action, and the molecular mechanisms underlying the two syndromes of TH resistance, RTHa and RTHb.
Title: Patterns of thyroid hormone receptor expression in zebrafish and generation of a novel model of resistance to thyroid hormone action.
Loss- and gain-of-function experiments show that L-opsin expression requires trbeta2 activity before cone differentiation. Ectopic expression of trbeta2 after cone differentiation produces cones with mixed opsins.
Title: Cone photoreceptor types in zebrafish are generated by symmetric terminal divisions of dedicated precursors.
Data suggest that the embryonic to larval transitory phase is characterized by its dependency on the timely synthesis of thyroid hormone and the concomitant autoinductive increase in thyroid hormone receptor beta mRNA levels.
Title: Thyroid hormones are important for embryonic to larval transitory phase in zebrafish.

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General gene information

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Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription factor activity	IEA Inferred from Electronic Annotation more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables nuclear receptor activity	IBA Inferred from Biological aspect of Ancestor more info
enables nuclear receptor activity	IDA Inferred from Direct Assay more info	PubMed
enables nuclear receptor activity	IEA Inferred from Electronic Annotation more info
enables nuclear receptor activity	ISS Inferred from Sequence or Structural Similarity more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables sequence-specific DNA binding	IEA Inferred from Electronic Annotation more info
enables thyroid hormone binding	ISS Inferred from Sequence or Structural Similarity more info
enables zinc ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within camera-type eye development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in cell differentiation	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within inner ear development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within regulation of DNA-templated transcription	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within retinal cone cell development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within retinal cone cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within retinal cone cell fate determination	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in retinoic acid receptor signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
involved_in thyroid hormone mediated signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within thyroid hormone mediated signaling pathway	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
part_of RNA polymerase II transcription regulator complex	IBA Inferred from Biological aspect of Ancestor more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: thyroid hormone receptor beta

Names: TRbeta1; nuclear receptor subfamily 1 group A member 2; thyroid hormone receptor beta 2; thyroid hormone receptor beta-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_131340.1 → NP_571415.1 thyroid hormone receptor beta

See identical proteins and their annotated locations for NP_571415.1

Status: PROVISIONAL

Source sequence(s)

AF109732

UniProtKB/Swiss-Prot

A3QJW1, B3DIF2, O42560, Q90Y31, Q9PVE4

Related

ENSDARP00000137456.2, ENSDART00000170790.2

Conserved Domains (2) summary

cd06935
Location:141 → 383

NR_LBD_TR; The ligand binding domain of thyroid hormone receptor, a members of a superfamily of nuclear receptors

cd06961
Location:31 → 117

NR_DBD_TR; DNA-binding domain of thyroid hormone receptors (TRs) is composed of two C4-type zinc fingers

RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...

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

Reference GRCz11 Primary Assembly

Genomic

NC_007130.7 Reference GRCz11 Primary Assembly

Range

17518055..17658190 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_021467990.1 → XP_021323665.1 thyroid hormone receptor beta isoform X4

UniProtKB/Swiss-Prot

A3QJW1, B3DIF2, O42560, Q90Y31, Q9PVE4

UniProtKB/TrEMBL

A0A8M9PRA9

Conserved Domains (2) summary

cd06935
Location:141 → 412

NR_LBD_TR; The ligand binding domain of thyroid hormone receptor, a members of a superfamily of nuclear receptors

cd06961
Location:31 → 117

NR_DBD_TR; DNA-binding domain of thyroid hormone receptors (TRs) is composed of two C4-type zinc fingers
XM_021467989.1 → XP_021323664.1 thyroid hormone receptor beta isoform X4

UniProtKB/Swiss-Prot

A3QJW1, B3DIF2, O42560, Q90Y31, Q9PVE4

UniProtKB/TrEMBL

A0A8M9PRA9

Conserved Domains (2) summary

cd06935
Location:141 → 412

NR_LBD_TR; The ligand binding domain of thyroid hormone receptor, a members of a superfamily of nuclear receptors

cd06961
Location:31 → 117

NR_DBD_TR; DNA-binding domain of thyroid hormone receptors (TRs) is composed of two C4-type zinc fingers
XM_021467987.1 → XP_021323662.1 thyroid hormone receptor beta isoform X4

UniProtKB/Swiss-Prot

A3QJW1, B3DIF2, O42560, Q90Y31, Q9PVE4

UniProtKB/TrEMBL

A0A8M9PRA9

Related

ENSDARP00000149633.1, ENSDART00000186678.1

Conserved Domains (2) summary

cd06935
Location:141 → 412

NR_LBD_TR; The ligand binding domain of thyroid hormone receptor, a members of a superfamily of nuclear receptors

cd06961
Location:31 → 117

NR_DBD_TR; DNA-binding domain of thyroid hormone receptors (TRs) is composed of two C4-type zinc fingers
XM_021467988.1 → XP_021323663.1 thyroid hormone receptor beta isoform X4

UniProtKB/Swiss-Prot

A3QJW1, B3DIF2, O42560, Q90Y31, Q9PVE4

UniProtKB/TrEMBL

A0A8M9PRA9

Related

ENSDARP00000150484.1, ENSDART00000188045.1

Conserved Domains (2) summary

cd06935
Location:141 → 412

NR_LBD_TR; The ligand binding domain of thyroid hormone receptor, a members of a superfamily of nuclear receptors

cd06961
Location:31 → 117

NR_DBD_TR; DNA-binding domain of thyroid hormone receptors (TRs) is composed of two C4-type zinc fingers
XM_021467986.1 → XP_021323661.1 thyroid hormone receptor beta isoform X4

UniProtKB/Swiss-Prot

A3QJW1, B3DIF2, O42560, Q90Y31, Q9PVE4

UniProtKB/TrEMBL

A0A8M9PRA9

Conserved Domains (2) summary

cd06935
Location:141 → 412

NR_LBD_TR; The ligand binding domain of thyroid hormone receptor, a members of a superfamily of nuclear receptors

cd06961
Location:31 → 117

NR_DBD_TR; DNA-binding domain of thyroid hormone receptors (TRs) is composed of two C4-type zinc fingers
XM_021467985.1 → XP_021323660.1 thyroid hormone receptor beta isoform X4

UniProtKB/Swiss-Prot

A3QJW1, B3DIF2, O42560, Q90Y31, Q9PVE4

UniProtKB/TrEMBL

A0A8M9PRA9

Related

ENSDARP00000126275.1, ENSDART00000151766.3

Conserved Domains (2) summary

cd06935
Location:141 → 412

NR_LBD_TR; The ligand binding domain of thyroid hormone receptor, a members of a superfamily of nuclear receptors

cd06961
Location:31 → 117

NR_DBD_TR; DNA-binding domain of thyroid hormone receptors (TRs) is composed of two C4-type zinc fingers
XM_005159502.4 → XP_005159559.1 thyroid hormone receptor beta isoform X3

UniProtKB/TrEMBL

A0A8M2B694

Conserved Domains (2) summary

cd06935
Location:234 → 476

NR_LBD_TR; The ligand binding domain of thyroid hormone receptor, a members of a superfamily of nuclear receptors

cd06961
Location:124 → 210

NR_DBD_TR; DNA-binding domain of thyroid hormone receptors (TRs) is composed of two C4-type zinc fingers
XM_021467984.1 → XP_021323659.1 thyroid hormone receptor beta isoform X1

UniProtKB/TrEMBL

A0A2R8QK91, A0A8M9PG78

Related

ENSDARP00000152808.1, ENSDART00000189391.1

Conserved Domains (2) summary

cd06935
Location:234 → 505

NR_LBD_TR; The ligand binding domain of thyroid hormone receptor, a members of a superfamily of nuclear receptors

cd06961
Location:124 → 210

NR_DBD_TR; DNA-binding domain of thyroid hormone receptors (TRs) is composed of two C4-type zinc fingers
XM_009294157.3 → XP_009292432.1 thyroid hormone receptor beta isoform X7

UniProtKB/TrEMBL

A0A8M3AK49

Conserved Domains (1) summary

cd06935
Location:25 → 237

NR_LBD_TR; The ligand binding domain of thyroid hormone receptor, a members of a superfamily of nuclear receptors
XM_005159501.4 → XP_005159558.1 thyroid hormone receptor beta isoform X2

See identical proteins and their annotated locations for XP_005159558.1

UniProtKB/TrEMBL

S6BPQ3

Related

ENSDART00000142170.2

Conserved Domains (2) summary

cd06935
Location:234 → 485

NR_LBD_TR; The ligand binding domain of thyroid hormone receptor, a members of a superfamily of nuclear receptors

cd06961
Location:124 → 210

NR_DBD_TR; DNA-binding domain of thyroid hormone receptors (TRs) is composed of two C4-type zinc fingers
XM_005159505.4 → XP_005159562.1 thyroid hormone receptor beta isoform X6

UniProtKB/TrEMBL

A0A8M2B654

Conserved Domains (2) summary

cd06961
Location:124 → 210

NR_DBD_TR; DNA-binding domain of thyroid hormone receptors (TRs) is composed of two C4-type zinc fingers

cl11397
Location:234 → 267

NR_LBD; The ligand binding domain of nuclear receptors, a family of ligand-activated transcription regulators
XM_021467991.1 → XP_021323666.1 thyroid hormone receptor beta isoform X5

UniProtKB/TrEMBL

A0A8M9PN36

Conserved Domains (2) summary

cd06961
Location:124 → 210

NR_DBD_TR; DNA-binding domain of thyroid hormone receptors (TRs) is composed of two C4-type zinc fingers

cl11397
Location:234 → 264

NR_LBD; The ligand binding domain of nuclear receptors, a family of ligand-activated transcription regulators