utp4 UTP4 small subunit processome component [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: utp4provided by ZNC
Official Full Name: UTP4 small subunit processome componentprovided by ZNC
Primary source: ZFIN:ZDB-GENE-040426-2466
See related: Ensembl:ENSDARG00000017675 AllianceGenome:ZFIN:ZDB-GENE-040426-2466
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: cirh1a; zgc:77199; wu:fi09g10; wu:fi37c02
Summary: Acts upstream of or within hepaticobiliary system process. Predicted to be part of small-subunit processome and t-UTP complex. Is expressed in several structures, including alar plate midbrain region; digestive system; immature eye; nervous system; and segmental plate. Human ortholog(s) of this gene implicated in cholestasis and primary biliary cholangitis. Orthologous to human UTP4 (UTP4 small subunit processome component). [provided by Alliance of Genome Resources, Nov 2024]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 18

Exon count:: 17

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	18	NC_007129.7 (14619544..14633308)
105	previous assembly	GRCz10 (GCF_000002035.5)	18	NC_007129.6 (14651036..14664796)

Chromosome 18 - NC_007129.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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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 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?

data provide the first in vivo evidence of a role for Cirhin in biliary development, and support the hypothesis that congenital defects affecting ribosome biogenesis can activate a cellular stress response mediated by p53
Title: p53-mediated biliary defects caused by knockdown of cirh1a, the zebrafish homolog of the gene responsible for North American Indian Childhood Cirrhosis.

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General gene information

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Markers

fi09g10.x1 (e-PCR)
- UniSTS:196749

fc31f02.y1 (e-PCR)
- UniSTS:193519

AW173860 (e-PCR)
- UniSTS:205823

Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables molecular_function	ND No biological Data available more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within hepaticobiliary system process	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within hepaticobiliary system process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
part_of small-subunit processome	IBA Inferred from Biological aspect of Ancestor more info
part_of t-UTP complex	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: U3 small nucleolar RNA-associated protein 4 homolog

Names: cirrhosis, autosomal recessive 1A (cirhin)

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_213282.2 → NP_998447.1 U3 small nucleolar RNA-associated protein 4 homolog

See identical proteins and their annotated locations for NP_998447.1

Status: VALIDATED

Source sequence(s)

CT025859

UniProtKB/TrEMBL

A0A8M1PPH6, Q6P125

Related

ENSDARP00000003198.8, ENSDART00000010821.10

Conserved Domains (3) summary

COG2319
Location:17 → 259

WD40; WD40 repeat [General function prediction only]

sd00039
Location:21 → 57

7WD40; WD40 repeat [structural motif]

cl02567
Location:16 → 305

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 ...