cavin1b caveolae associated protein 1b [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: cavin1bprovided by ZNC
Official Full Name: caveolae associated protein 1bprovided by ZNC
Primary source: ZFIN:ZDB-GENE-030131-5509
See related: Ensembl:ENSDARG00000059362 AllianceGenome:ZFIN:ZDB-GENE-030131-5509
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: ptrf; ptrfb; fd20g07; wu:fd20g07; zgc:162917
Summary: Predicted to enable rRNA primary transcript binding activity. Acts upstream of or within notochord development. Predicted to be located in membrane. Predicted to be active in caveola and cytoplasm. Is expressed in blood vasculature; notochord; otic vesicle; and pharyngeal arch 3-7 skeleton. Human ortholog(s) of this gene implicated in congenital generalized lipodystrophy type 4. Orthologous to human CAVIN1 (caveolae associated protein 1). [provided by Alliance of Genome Resources, Nov 2024]
Orthologs: all
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Genomic context

Location:: chromosome: 24

Exon count:: 2

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	24	NC_007135.7 (7637261..7668320)
105	previous assembly	GRCz10 (GCF_000002035.5)	24	NC_007135.6 (7607942..7639001)

Chromosome 24 - NC_007135.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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Expression

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See details

Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages 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?

Cavin1b is essential for zebrafish notochord caveola formation, where caveolae in the notochord is required for mechanoprotection of notochord cells from mechanical stress-induced disruption and necrosis.
Title: Caveolae Protect Notochord Cells against Catastrophic Mechanical Failure during Development.

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General gene information

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Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables rRNA primary transcript binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within notochord development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in termination of RNA polymerase I transcription	IBA Inferred from Biological aspect of Ancestor more info
involved_in transcription initiation at RNA polymerase I promoter	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
is_active_in caveola	IBA Inferred from Biological aspect of Ancestor more info
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in membrane	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: caveolae-associated protein 1b

Names: polymerase I and transcript release factor b

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_001114549.2 → NP_001108021.1 caveolae-associated protein 1b

See identical proteins and their annotated locations for NP_001108021.1

Status: VALIDATED

Source sequence(s)

BX294185, CT573322

UniProtKB/TrEMBL

A0A8M1NHF1, A6NA21

Related

ENSDARP00000076902.5, ENSDART00000082467.6

Conserved Domains (1) summary

pfam15237
Location:60 → 369

PTRF_SDPR; PTRF/SDPR family

RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

Reference GRCz11 Primary Assembly

Genomic

NC_007135.7 Reference GRCz11 Primary Assembly

Range

7637261..7668320

Download

GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

NM_001089336.1: Suppressed sequence

Description

NM_001089336.1: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.