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Ift88 intraflagellar transport 88 [ Mus musculus (house mouse) ]

Gene ID: 21821, updated on 1-Mar-2024

Summary

Official Symbol
Ift88provided by MGI
Official Full Name
intraflagellar transport 88provided by MGI
Primary source
MGI:MGI:98715
See related
Ensembl:ENSMUSG00000040040 AllianceGenome:MGI:98715
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
fxo; orpk; Tg737; Ttc10; flexo; polaris; Tg737Rpw; TgN737Rpw
Summary
Enables kinesin binding activity. Involved in regulation of autophagosome assembly and regulation of cilium assembly. Acts upstream of or within several processes, including animal organ development; cell surface receptor signaling pathway; and spermatid development. Located in several cellular components, including axonemal basal plate; microtubule organizing center; and non-motile cilium. Part of intraciliary transport particle B. Is expressed in several structures, including alimentary system; brain; genitourinary system; heart; and respiratory system. Used to study autosomal recessive polycystic kidney disease and mitral valve disease. Orthologous to human IFT88 (intraflagellar transport 88). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in testis adult (RPKM 6.4), CNS E14 (RPKM 4.7) and 23 other tissues See more
Orthologs
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Genomic context

See Ift88 in Genome Data Viewer
Location:
14 C3; 14 30.1 cM
Exon count:
28
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 14 NC_000080.7 (57661519..57755393)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 14 NC_000080.6 (57424064..57517936)

Chromosome 14 - NC_000080.7Genomic Context describing neighboring genes Neighboring gene crystallin, lambda 1 Neighboring gene predicted gene, 41161 Neighboring gene STARR-positive B cell enhancer ABC_E1897 Neighboring gene predicted gene, 29717 Neighboring gene STARR-seq mESC enhancer starr_36807 Neighboring gene STARR-positive B cell enhancer ABC_E5444 Neighboring gene STARR-positive B cell enhancer mm9_chr14:58144327-58144627 Neighboring gene STARR-seq mESC enhancer starr_36808 Neighboring gene interleukin 17D Neighboring gene EEF1A alpha lysine methyltransferase 1 Neighboring gene STARR-positive B cell enhancer ABC_E5445

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables kinesin binding IBA
Inferred from Biological aspect of Ancestor
more info
 
enables kinesin binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
acts_upstream_of_or_within Notch signaling pathway IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within animal organ morphogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within anterior/posterior pattern specification IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within brain development IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within brain development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within cardiac muscle cell differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within cardiac septum morphogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within cell projection organization IEA
Inferred from Electronic Annotation
more info
 
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 cilium assembly NAS
Non-traceable Author Statement
more info
PubMed 
acts_upstream_of_or_within cilium movement IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within cochlea development IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within cytoplasmic microtubule organization IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within determination of left/right symmetry IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within dorsal/ventral pattern formation IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within embryonic digit morphogenesis IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within embryonic digit morphogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within endothelial cell morphogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within epidermal stem cell homeostasis IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within epidermis development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within eye development IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within forebrain development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within forebrain morphogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within heart development IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within heart formation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in inner ear receptor cell stereocilium organization IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of_or_within inner ear receptor cell stereocilium organization IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within inner ear receptor cell stereocilium organization IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in intraciliary anterograde transport NAS
Non-traceable Author Statement
more info
PubMed 
involved_in intraciliary transport IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of keratinocyte proliferation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in kidney development IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of_or_within kidney development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within limb development IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within liver development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within lung development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within lung vasculature development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within negative regulation of epithelial cell proliferation IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within negative regulation of keratinocyte proliferation IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within nervous system development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within neural precursor cell proliferation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in non-motile cilium assembly IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of_or_within non-motile cilium assembly IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within pancreas development IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of cilium assembly ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within positive regulation of insulin-like growth factor receptor signaling pathway IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within primary palate development IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within protein localization IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of autophagosome assembly IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of cilium assembly IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within regulation of fat cell differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within regulation of feeding behavior IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within regulation of odontogenesis of dentin-containing tooth IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within regulation of protein processing IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within response to fluid shear stress IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within smoothened signaling pathway IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within smoothened signaling pathway IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within sperm axoneme assembly IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within spermatid nucleus elongation IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within spinal cord dorsal/ventral patterning IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within telencephalon development IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
located_in acrosomal membrane IDA
Inferred from Direct Assay
more info
PubMed 
located_in axonemal basal plate IDA
Inferred from Direct Assay
more info
PubMed 
located_in axoneme IDA
Inferred from Direct Assay
more info
PubMed 
located_in cell projection IEA
Inferred from Electronic Annotation
more info
 
is_active_in centriole IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in centriole IDA
Inferred from Direct Assay
more info
PubMed 
located_in centriole ISO
Inferred from Sequence Orthology
more info
 
located_in centrosome IDA
Inferred from Direct Assay
more info
PubMed 
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 IDA
Inferred from Direct Assay
more info
PubMed 
located_in ciliary basal body ISO
Inferred from Sequence Orthology
more info
PubMed 
is_active_in ciliary base IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in ciliary base IDA
Inferred from Direct Assay
more info
PubMed 
located_in ciliary tip IDA
Inferred from Direct Assay
more info
PubMed 
located_in cilium IDA
Inferred from Direct Assay
more info
PubMed 
located_in cilium ISO
Inferred from Sequence Orthology
more info
PubMed 
located_in cilium NAS
Non-traceable Author Statement
more info
PubMed 
located_in cilium TAS
Traceable Author Statement
more info
 
located_in cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
located_in cytoskeleton IEA
Inferred from Electronic Annotation
more info
 
located_in cytosol TAS
Traceable Author Statement
more info
 
part_of intraciliary transport particle B IDA
Inferred from Direct Assay
more info
PubMed 
part_of intraciliary transport particle B ISO
Inferred from Sequence Orthology
more info
 
located_in kinocilium IDA
Inferred from Direct Assay
more info
PubMed 
located_in manchette IDA
Inferred from Direct Assay
more info
PubMed 
located_in motile cilium IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in non-motile cilium IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in non-motile cilium IDA
Inferred from Direct Assay
more info
PubMed 
located_in outer acrosomal membrane ISO
Inferred from Sequence Orthology
more info
 
located_in photoreceptor connecting cilium IDA
Inferred from Direct Assay
more info
PubMed 
located_in sperm flagellum IDA
Inferred from Direct Assay
more info
PubMed 
located_in trans-Golgi network ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
intraflagellar transport protein 88 homolog
Names
TPR repeat protein 10
intraflagellar transport 88 homolog
recessive polycystic kidney disease protein Tg737
tetratricopeptide repeat domain 10
tetratricopeptide repeat protein 10
tgN(Imorpk)737Rpw
transgene insert site 737, insertional mutation, polycystic kidney disease

NCBI Reference Sequences (RefSeq)

NEW Try the new Transcript table

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)

  1. NM_001404393.1NP_001391322.1  intraflagellar transport protein 88 homolog isoform 2

    Status: VALIDATED

    Source sequence(s)
    AC124462, AC154675
    UniProtKB/Swiss-Prot
    E9QKU0, Q3UXY9, Q61371, Q921J5
  2. NM_001404394.1NP_001391323.1  intraflagellar transport protein 88 homolog isoform 3

    Status: VALIDATED

    Source sequence(s)
    AC124462, AC154675
    UniProtKB/Swiss-Prot
    E9QKU0, Q3UXY9, Q61371, Q921J5
  3. NM_001404395.1NP_001391324.1  intraflagellar transport protein 88 homolog isoform 4

    Status: VALIDATED

    Source sequence(s)
    AC124462, AC154675
    UniProtKB/Swiss-Prot
    E9QKU0, Q3UXY9, Q61371, Q921J5
  4. NM_001404396.1NP_001391325.1  intraflagellar transport protein 88 homolog isoform 5

    Status: VALIDATED

    Source sequence(s)
    AC124462, AC154675
    UniProtKB/Swiss-Prot
    E9QKU0, Q3UXY9, Q61371, Q921J5
  5. NM_001404397.1NP_001391326.1  intraflagellar transport protein 88 homolog isoform 6

    Status: VALIDATED

    Source sequence(s)
    AC124462, AC154675
    UniProtKB/Swiss-Prot
    E9QKU0, Q3UXY9, Q61371, Q921J5
  6. NM_009376.3NP_033402.2  intraflagellar transport protein 88 homolog isoform 1

    See identical proteins and their annotated locations for NP_033402.2

    Status: VALIDATED

    Source sequence(s)
    AC124462, AC154675
    Consensus CDS
    CCDS36937.2
    UniProtKB/Swiss-Prot
    E9QKU0, Q3UXY9, Q61371, Q921J5
    UniProtKB/TrEMBL
    G3X9Z7
    Related
    ENSMUSP00000113768.2, ENSMUST00000122063.8
    Conserved Domains (7) summary
    COG0457
    Location:427687
    TPR; Tetratricopeptide (TPR) repeat [General function prediction only]
    sd00006
    Location:485513
    TPR; TPR repeat [structural motif]
    cd15832
    Location:515548
    SNAP; TPR repeat [structural motif]
    pfam00515
    Location:238265
    TPR_1; Tetratricopeptide repeat
    pfam13414
    Location:199260
    TPR_11; TPR repeat
    pfam13424
    Location:231304
    TPR_12; Tetratricopeptide repeat
    cl24038
    Location:501721
    SNAP; Soluble N-ethylmaleimide-sensitive factor (NSF) Attachment Protein family

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000080.7 Reference GRCm39 C57BL/6J

    Range
    57661519..57755393
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011245008.4XP_011243310.1  intraflagellar transport protein 88 homolog isoform X3

    See identical proteins and their annotated locations for XP_011243310.1

    UniProtKB/Swiss-Prot
    E9QKU0, Q3UXY9, Q61371, Q921J5
    Conserved Domains (2) summary
    TIGR02917
    Location:203692
    PEP_TPR_lipo; putative PEP-CTERM system TPR-repeat lipoprotein
    sd00006
    Location:485513
    TPR; TPR repeat [structural motif]
  2. XM_006518812.5XP_006518875.1  intraflagellar transport protein 88 homolog isoform X4

    Conserved Domains (2) summary
    TIGR02917
    Location:33308
    PEP_TPR_lipo; putative PEP-CTERM system TPR-repeat lipoprotein
    sd00006
    Location:95123
    TPR; TPR repeat [structural motif]

RNA

  1. XR_003950838.2 RNA Sequence

  2. XR_004938377.1 RNA Sequence

  3. XR_383157.5 RNA Sequence

  4. XR_003950839.2 RNA Sequence