Ift140 intraflagellar transport 140 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Ift140provided by RGD
Official Full Name: intraflagellar transport 140provided by RGD
Primary source: RGD:2318759
See related: Ensembl:ENSRNOG00000016545 AllianceGenome:RGD:2318759
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Predicted to be involved in intraciliary retrograde transport and regulation of cilium assembly. Predicted to act upstream of or within several processes, including embryonic organ development; nervous system development; and non-motile cilium assembly. Predicted to be located in microtubule organizing center and photoreceptor cell cilium. Predicted to be part of intraciliary transport particle A. Predicted to be active in axoneme and ciliary basal body. Human ortholog(s) of this gene implicated in retinitis pigmentosa and short-rib thoracic dysplasia 9 with or without polydactyly. Orthologous to human IFT140 (intraflagellar transport 140). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Adrenal (RPKM 122.0), Testes (RPKM 104.7) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 10q12

Exon count:: 32

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	10	NC_086028.1 (14537134..14624926)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	10	NC_051345.1 (14032665..14121682)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	10	NC_005109.4 (14373668..14461509)

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
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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Markers

RH133574 (e-PCR)
- UniSTS:216857

RH127790 (e-PCR)
- UniSTS:211100

Gene Ontology Provided by RGD

Process	Evidence Code	Pubs
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 determination of left/right symmetry	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within embryonic brain development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within embryonic camera-type eye development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within embryonic cranial skeleton morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within embryonic digit morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within heart development	ISO Inferred from Sequence Orthology more info
involved_in intraciliary retrograde transport	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within intraciliary retrograde transport	ISO Inferred from Sequence Orthology more info
involved_in intraciliary retrograde transport	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 limb morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within neural tube patterning	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within non-motile cilium assembly	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within photoreceptor cell outer segment organization	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within protein localization to cilium	ISO Inferred from Sequence Orthology more info
involved_in protein localization to cilium	ISO Inferred from Sequence Orthology more info
involved_in regulation of cilium assembly	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of smoothened signaling pathway	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
is_active_in axoneme	IBA Inferred from Biological aspect of Ancestor more info
located_in axoneme	ISO Inferred from Sequence Orthology more info
located_in centriole	ISO Inferred from Sequence Orthology 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
located_in cilium	ISO Inferred from Sequence Orthology more info
located_in cone photoreceptor outer segment	ISO Inferred from Sequence Orthology more info
part_of intraciliary transport particle A	IBA Inferred from Biological aspect of Ancestor more info
part_of intraciliary transport particle A	ISO Inferred from Sequence Orthology more info
located_in non-motile cilium	ISO Inferred from Sequence Orthology more info
located_in photoreceptor connecting cilium	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: intraflagellar transport protein 140 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_001427126.1 → NP_001414055.1 intraflagellar transport protein 140 homolog

Status: VALIDATED

Source sequence(s)

JAXUCZ010000010

UniProtKB/TrEMBL

F1LY69

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

14537134..14624926

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039087092.2 → XP_038943020.1 intraflagellar transport protein 140 homolog isoform X1

Conserved Domains (3) summary

COG2319
Location:86 → 437

WD40; WD40 repeat [General function prediction only]

sd00039
Location:19 → 57

7WD40; WD40 repeat [structural motif]

cl29593
Location:15 → 139

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 ...
XM_039087097.2 → XP_038943025.1 intraflagellar transport protein 140 homolog isoform X5

Conserved Domains (3) summary

COG2319
Location:86 → 437

WD40; WD40 repeat [General function prediction only]

sd00039
Location:19 → 57

7WD40; WD40 repeat [structural motif]

cl29593
Location:15 → 139

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 ...
XM_039087093.2 → XP_038943021.1 intraflagellar transport protein 140 homolog isoform X2

Conserved Domains (3) summary

COG2319
Location:86 → 437

WD40; WD40 repeat [General function prediction only]

sd00039
Location:19 → 57

7WD40; WD40 repeat [structural motif]

cl29593
Location:15 → 139

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 ...
XM_063268240.1 → XP_063124310.1 intraflagellar transport protein 140 homolog isoform X3
XM_039087096.2 → XP_038943024.1 intraflagellar transport protein 140 homolog isoform X4