ift56 intraflagellar transport 56 [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: ift56provided by ZNC
Official Full Name: intraflagellar transport 56provided by ZNC
Primary source: ZFIN:ZDB-GENE-041212-41
See related: Ensembl:ENSDARG00000012039 AllianceGenome:ZFIN:ZDB-GENE-041212-41
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: ttc26; im:7142924; zgc:103412
Summary: Predicted to enable intraciliary transport particle B binding activity. Involved in intraciliary transport. Acts upstream of or within cilium assembly; photoreceptor cell development; and pronephric duct morphogenesis. Predicted to be located in cilium. Predicted to be part of intraciliary transport particle B. Predicted to be active in ciliary basal body and ciliary base. Is expressed in Kupffer's vesicle; forerunner cell group; neural plate; neural tube; and pronephric duct. Orthologous to human IFT56 (intraflagellar transport 56). [provided by Alliance of Genome Resources, Dec 2024]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 6

Exon count:: 17

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	6	NC_007117.7 (7688491..7711312, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	6	NC_007117.6 (7531322..7554175, complement)

Chromosome 6 - NC_007117.7 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
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?

loss of ttc26 function prevents normal ciliogenesis and differentiation in photoreceptor cells.
Title: Knockdown of ttc26 disrupts ciliogenesis of the photoreceptor cells and the pronephros in zebrafish.

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables intraciliary transport particle B binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in axoneme assembly	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within cilium assembly	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within cilium assembly	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in cilium assembly	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in intraciliary anterograde transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in intraciliary transport	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in intraciliary transport involved in cilium assembly	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within photoreceptor cell morphogenesis	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within photoreceptor cell outer segment organization	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within pronephric duct morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in protein localization to cilium	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within protein transport	IEA Inferred from Electronic Annotation more info
involved_in smoothened signaling pathway	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
located_in cell projection	IEA Inferred from Electronic Annotation more info
is_active_in ciliary basal body	IBA Inferred from Biological aspect of Ancestor more info
is_active_in ciliary base	IBA Inferred from Biological aspect of Ancestor more info
located_in cilium	IEA Inferred from Electronic Annotation more info
located_in cilium	ISS Inferred from Sequence or Structural Similarity more info
part_of intraciliary transport particle B	IBA Inferred from Biological aspect of Ancestor more info
part_of intraciliary transport particle B	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: intraflagellar transport protein 56

Names: TPR repeat protein 26; tetratricopeptide repeat domain 26; tetratricopeptide repeat protein 26

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_001008617.1 → NP_001008617.1 intraflagellar transport protein 56

See identical proteins and their annotated locations for NP_001008617.1

Status: PROVISIONAL

Source sequence(s)

BC086810

UniProtKB/Swiss-Prot

F1QZ19, Q5PR66

Related

ENSDARP00000032176.7, ENSDART00000032494.8

Conserved Domains (2) summary

TIGR02552
Location:402 → 506

LcrH_SycD; type III secretion low calcium response chaperone LcrH/SycD

sd00006
Location:61 → 88

TPR; TPR repeat [structural motif]

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_007117.7 Reference GRCz11 Primary Assembly

Range

7688491..7711312 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_005165714.5 → XP_005165771.1 intraflagellar transport protein 56 isoform X1

UniProtKB/Swiss-Prot

F1QZ19, Q5PR66

UniProtKB/TrEMBL

A0A8M2BD76

Conserved Domains (2) summary

TIGR02552
Location:413 → 517

LcrH_SycD; type III secretion low calcium response chaperone LcrH/SycD

sd00006
Location:61 → 88

TPR; TPR repeat [structural motif]