Ift20 intraflagellar transport 20 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Ift20provided by RGD
Official Full Name: intraflagellar transport 20provided by RGD
Primary source: RGD:1309400
See related: EnsemblRapid:ENSRNOG00000008891 AllianceGenome:RGD:1309400
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: RGD1309400
Summary: Predicted to enable opsin binding activity and small GTPase binding activity. Acts upstream of or within protein localization to cilium. Predicted to be located in several cellular components, including cis-Golgi network; microtubule cytoskeleton; and non-motile cilium. Predicted to be part of intraciliary transport particle B. Predicted to be active in several cellular components, including ciliary base; microtubule organizing center; and non-motile cilium. Orthologous to human IFT20 (intraflagellar transport 20). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Liver (RPKM 238.8), Kidney (RPKM 194.3) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 10q25

Exon count:: 6

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	10	NC_086028.1 (63930629..63936174)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	10	NC_051345.1 (63432597..63438125)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	10	NC_005109.4 (65805808..65811353)

Chromosome 10 - NC_086028.1 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?

IFT20 ablation impairs the dedifferentiation capacity of Muller cells induced by Shh and by glutamate.
Title: Primary cilia in rat mature Müller glia: downregulation of IFT20 expression reduces sonic hedgehog-mediated proliferation and dedifferentiation potential of Müller glia primary cultures.
This work suggests that IFT20 functions in the delivery of ciliary membrane proteins from the Golgi complex to the cilium.[IFT20]
Title: The intraflagellar transport protein IFT20 is associated with the Golgi complex and is required for cilia assembly.

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables opsin binding	ISO Inferred from Sequence Orthology more info
enables small GTPase binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within cardiac muscle cell differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within centrosome localization	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
involved_in cilium assembly	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cochlea development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within establishment of epithelial cell apical/basal polarity	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within establishment of planar polarity	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within inner ear receptor cell stereocilium organization	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within intraciliary transport	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within kidney development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within neural precursor cell proliferation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within neurogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within opsin transport	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within photoreceptor cell outer segment organization	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cilium assembly	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within protein localization to Golgi apparatus	ISO Inferred from Sequence Orthology more info
involved_in protein localization to cilium	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within protein localization to cilium	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within protein localization to cilium	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within protein localization to plasma membrane	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within protein transmembrane transport	ISO Inferred from Sequence Orthology more info
involved_in regulation of autophagosome assembly	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of canonical Wnt signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in regulation of cilium assembly	ISO Inferred from Sequence Orthology more info
involved_in regulation of platelet-derived growth factor receptor-alpha signaling pathway	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 spermatogenesis	ISO Inferred from Sequence Orthology more info
involved_in spermatogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within visual learning	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in Golgi apparatus	ISO Inferred from Sequence Orthology more info
located_in acrosomal vesicle	ISO Inferred from Sequence Orthology more info
located_in centriole	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
is_active_in ciliary basal body	IBA Inferred from Biological aspect of Ancestor more info
located_in ciliary basal body	ISO Inferred from Sequence Orthology more info
is_active_in ciliary base	IBA Inferred from Biological aspect of Ancestor more info
located_in ciliary base	ISO Inferred from Sequence Orthology more info
located_in cilium	ISO Inferred from Sequence Orthology more info
located_in cis-Golgi network	ISO Inferred from Sequence Orthology more info
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytoplasmic vesicle	ISO Inferred from Sequence Orthology more info
located_in dendrite terminus	ISO Inferred from Sequence Orthology more info
part_of intraciliary transport particle	IBA Inferred from Biological aspect of Ancestor more info
part_of intraciliary transport particle B	ISO Inferred from Sequence Orthology more info
located_in kinociliary basal body	ISO Inferred from Sequence Orthology more info
located_in manchette	ISO Inferred from Sequence Orthology more info
located_in microvillus	ISO Inferred from Sequence Orthology more info
located_in motile cilium	ISO Inferred from Sequence Orthology more info
is_active_in neuron projection	IBA Inferred from Biological aspect of Ancestor more info
located_in neuron projection	ISO Inferred from Sequence Orthology more info
is_active_in non-motile cilium	IBA Inferred from Biological aspect of Ancestor more info
located_in photoreceptor connecting cilium	ISO Inferred from Sequence Orthology more info
located_in photoreceptor outer segment	ISO Inferred from Sequence Orthology more info
located_in stereocilium	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: intraflagellar transport protein 20 homolog

Names: intraflagellar transport 20 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_001105815.1 → NP_001099285.1 intraflagellar transport protein 20 homolog

See identical proteins and their annotated locations for NP_001099285.1

Status: PROVISIONAL

Source sequence(s)

CH473948

UniProtKB/TrEMBL

A6HH60, D3ZSV1

Related

ENSRNOP00000011795.4, ENSRNOT00000011795.7

Conserved Domains (1) summary

pfam14931
Location:36 → 144

IFT20; Intraflagellar transport complex B, subunit 20

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_086028.1 Reference GRCr8

Range

63930629..63936174

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039085535.2 → XP_038941463.1 intraflagellar transport protein 20 homolog isoform X2

UniProtKB/TrEMBL

A6HH61

Conserved Domains (1) summary

cl20817
Location:24 → 101

GBP_C; Guanylate-binding protein, C-terminal domain
XM_006246935.5 → XP_006246997.1 intraflagellar transport protein 20 homolog isoform X1

See identical proteins and their annotated locations for XP_006246997.1

UniProtKB/TrEMBL

A6HH62

Conserved Domains (1) summary

pfam14931
Location:11 → 119

IFT20; Intraflagellar transport complex B, subunit 20
XM_063268683.1 → XP_063124753.1 intraflagellar transport protein 20 homolog isoform X3

UniProtKB/TrEMBL

A6HH63