Ift80 intraflagellar transport 80 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Ift80provided by RGD
Official Full Name: intraflagellar transport 80provided by RGD
Primary source: RGD:1312006
See related: EnsemblRapid:ENSRNOG00000009808 AllianceGenome:RGD:1312006
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: Wdr56; RGD1312006
Summary: Predicted to be involved in cilium assembly. Predicted to act upstream of or within several processes, including cell surface receptor signaling pathway; intracellular signaling cassette; and skeletal system development. Predicted to be located in ciliary basal body. Predicted to be part of intraciliary transport particle B. Predicted to be active in 9+0 non-motile cilium and centrosome. Human ortholog(s) of this gene implicated in asphyxiating thoracic dystrophy 2. Orthologous to human IFT80 (intraflagellar transport 80). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Thymus (RPKM 130.1), Testes (RPKM 114.6) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 2q32

Exon count:: 20

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	2	NC_086020.1 (155455773..155550082, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	2	NC_051337.1 (153144707..153240024, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	2	NC_005101.4 (165506878..165600748, complement)

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 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?

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General gene information

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Gene Ontology Provided by RGD

Process	Evidence Code	Pubs
acts_upstream_of_or_within apoptotic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within articular cartilage development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within bone development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within bone mineralization involved in bone maturation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within bone morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within canonical NF-kappaB signal transduction	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cartilage development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cartilage homeostasis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cell population proliferation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within chondrocyte differentiation	ISO Inferred from Sequence Orthology more info
involved_in cilium assembly	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within cilium assembly	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cilium organization	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within endochondral ossification	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within establishment or maintenance of cell polarity	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within fibroblast growth factor receptor signaling pathway	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within gene expression	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within growth plate cartilage chondrocyte differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within growth plate cartilage development	ISO Inferred from Sequence Orthology more info
acts_upstream_of keratinocyte proliferation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within limb development	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 keratinocyte proliferation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of non-canonical Wnt signaling pathway	ISO Inferred from Sequence Orthology more info
acts_upstream_of non-canonical Wnt signaling pathway	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within non-motile cilium assembly	ISO Inferred from Sequence Orthology more info
involved_in non-motile cilium assembly	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within odontoblast differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within odontogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within ossification	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within osteoblast differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within osteoblast proliferation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within osteoclast differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within phosphatidylinositol 3-kinase/protein kinase B signal transduction	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within proteasomal protein catabolic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within protein stabilization	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within protein ubiquitination	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within receptor localization to non-motile cilium	ISO Inferred from Sequence Orthology more info
involved_in response to inositol	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within skeletal system development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within smoothened signaling pathway	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within spinal cord development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within stem cell differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within stem cell proliferation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within tissue development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within tooth eruption	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
is_active_in 9+0 non-motile cilium	ISO Inferred from Sequence Orthology more info
is_active_in centrosome	IBA Inferred from Biological aspect of Ancestor more info
located_in centrosome	ISO Inferred from Sequence Orthology more info
located_in ciliary basal body	ISO Inferred from Sequence Orthology more info
is_active_in cilium	IBA Inferred from Biological aspect of Ancestor more info
located_in cilium	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
part_of intraciliary transport particle B	IBA Inferred from Biological aspect of Ancestor more info
part_of intraciliary transport particle B	ISO Inferred from Sequence Orthology 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 80 homolog

Names: WD repeat domain 56; WD repeat-containing protein 56; intraflagellar transport 80 homolog

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_001013911.1 → NP_001013933.1 intraflagellar transport protein 80 homolog

See identical proteins and their annotated locations for NP_001013933.1

Status: PROVISIONAL

Source sequence(s)

BC081937

UniProtKB/Swiss-Prot

Q66HB3

UniProtKB/TrEMBL

A0A8I6GEE4

Related

ENSRNOP00000013216.6, ENSRNOT00000013216.8

Conserved Domains (3) summary

COG2319
Location:4 → 134

WD40; WD40 repeat [General function prediction only]

sd00039
Location:110 → 145

7WD40; WD40 repeat [structural motif]

cl29593
Location:100 → 293

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 ...

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

155455773..155550082 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063281591.1 → XP_063137661.1 intraflagellar transport protein 80 homolog isoform X1

UniProtKB/Swiss-Prot

Q66HB3
XM_039102020.2 → XP_038957948.2 intraflagellar transport protein 80 homolog isoform X2

UniProtKB/TrEMBL

A6J5M6