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IFT25 intraflagellar transport 25 [ Homo sapiens (human) ]

Gene ID: 51668, updated on 14-Nov-2024

Summary

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Official Symbol
IFT25provided by HGNC
Official Full Name
intraflagellar transport 25provided by HGNC
Primary source
HGNC:HGNC:25019
See related
Ensembl:ENSG00000081870 MIM:620841; AllianceGenome:HGNC:25019
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
PP25; FAP232; HSPB11; C1orf41; CFAP232; HSPCO34
Summary
Predicted to enable metal ion binding activity. Predicted to be involved in kidney development and spermatogenesis. Predicted to act upstream of or within several processes, including left/right axis specification; lung development; and skeletal system development. Part of intraciliary transport particle B. [provided by Alliance of Genome Resources, Nov 2024]
Expression
Ubiquitous expression in thyroid (RPKM 22.0), lymph node (RPKM 13.3) and 25 other tissues See more
Orthologs
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Genomic context

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See IFT25 in Genome Data Viewer
Location:
1p32.3
Exon count:
11
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (53911576..53946305, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (53793420..53829213, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (54382246..54411978, complement)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene Yip1 domain family member 1 Neighboring gene Sharpr-MPRA regulatory region 6831 Neighboring gene Sharpr-MPRA regulatory region 3939 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:54359446-54359946 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:54359947-54360447 Neighboring gene uncharacterized LOC124904180 Neighboring gene iodothyronine deiodinase 1 Neighboring gene uncharacterized LOC124904181 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 913 Neighboring gene Sharpr-MPRA regulatory region 3629 Neighboring gene leucine rich repeat containing 42 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr1:54422389-54423588 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:54424449-54425155 Neighboring gene heterogeneous nuclear ribonucleoprotein A3 pseudogene 12

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Impaired cooperation between IFT74/BBS22-IFT81 and IFT25-IFT27/BBS19 causes Bardet-Biedl syndrome.
    Title: Impaired cooperation between IFT74/BBS22-IFT81 and IFT25-IFT27/BBS19 causes Bardet-Biedl syndrome.
  2. HSPB11 was identified as a novel prognostic marker in patients with high-grade glioma.
    Title: Association between small heat shock protein B11 and the prognostic value of MGMT promoter methylation in patients with high-grade glioma.
  3. HSPB11 are induced during multiple sclerosis lesion development in white but not grey matter.
    Title: Small heat shock proteins are induced during multiple sclerosis lesion development in white but not grey matter.
  4. Hsp16.2 expression is directly correlated with the histological grade of brain tumors.
    Title: Correlation between the progressive cytoplasmic expression of a novel small heat shock protein (Hsp16.2) and malignancy in brain tumors.
  5. These data suggest that Hsp16.2 can prevent the destabilization of mitochondrial membrane systems and could represent a suitable target for modulating cell death pathways.
    Title: Preventing apoptotic cell death by a novel small heat shock protein.
Submit: New GeneRIF Correction

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in cell differentiation IEA
Inferred from Electronic Annotation
more info
  
NOT involved_in cilium assembly ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in cilium assembly NAS
Non-traceable Author Statement
more info
 PubMed 
involved_in heart development IEA
Inferred from Electronic Annotation
more info
  
involved_in intraciliary anterograde transport NAS
Non-traceable Author Statement
more info
 PubMed 
involved_in kidney development ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in left/right axis specification IEA
Inferred from Electronic Annotation
more info
  
involved_in lung development IEA
Inferred from Electronic Annotation
more info
  
involved_in protein transport IEA
Inferred from Electronic Annotation
more info
  
involved_in skeletal system development IEA
Inferred from Electronic Annotation
more info
  
involved_in smoothened signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in spermatogenesis IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in spermatogenesis ISS
Inferred from Sequence or Structural Similarity
more info
  
Component Evidence Code Pubs
is_active_in centrosome IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in ciliary tip TAS
Traceable Author Statement
more info
  
is_active_in cilium IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cilium NAS
Non-traceable Author Statement
more info
 PubMed 
located_in cilium TAS
Traceable Author Statement
more info
  
part_of intraciliary transport particle B IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of intraciliary transport particle B IPI
Inferred from Physical Interaction
more info
 PubMed 
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 25 homolog
Names
heat shock protein beta-11
heat shock protein family B (small) member 11
heat shock protein family B (small), member 11
heat shock protein family B member 11
intraflagellar transport 25 homolog
placental protein 25

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)

  1. NM_001316935.2 → NP_001303864.1  intraflagellar transport protein 25 homolog isoform a

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2), as well as variant 1, encodes isoform a.
    Source sequence(s)
    AL031427
    Consensus CDS
    CCDS41341.1
    UniProtKB/Swiss-Prot
    A6NG57, D3DQ45, Q9Y547, Q9Y684
    Conserved Domains (1) summary
    pfam00754
    Location:19 → 121
    F5_F8_type_C; F5/8 type C domain

  2. NM_001382249.1 → NP_001369178.1  intraflagellar transport protein 25 homolog isoform b

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5), as well as variant 6, encodes isoform b.
    Source sequence(s)
    AL031427
    Conserved Domains (1) summary
    cl23730
    Location:19 → 65
    F5_F8_type_C; F5/8 type C domain

  3. NM_001382250.1 → NP_001369179.1  intraflagellar transport protein 25 homolog isoform b

    Status: VALIDATED

    Description
    Transcript Variant: This variant (6), as well as variant 5, encodes isoform b.
    Source sequence(s)
    AL031427
    Conserved Domains (1) summary
    cl23730
    Location:19 → 65
    F5_F8_type_C; F5/8 type C domain

  4. NM_001382251.1 → NP_001369180.1  intraflagellar transport protein 25 homolog isoform c

    Status: VALIDATED

    Description
    Transcript Variant: This variant (7), as well as variant 8, encodes isoform c.
    Source sequence(s)
    AL031427

  5. NM_001382252.1 → NP_001369181.1  intraflagellar transport protein 25 homolog isoform c

    Status: VALIDATED

    Description
    Transcript Variant: This variant (8), as well as variant 7, encodes isoform c.
    Source sequence(s)
    AL031427

  6. NM_001382253.1 → NP_001369182.1  intraflagellar transport protein 25 homolog isoform d

    Status: VALIDATED

    Source sequence(s)
    AL031427
    Conserved Domains (1) summary
    cl23730
    Location:19 → 51
    F5_F8_type_C; F5/8 type C domain

  7. NM_001382254.1 → NP_001369183.1  intraflagellar transport protein 25 homolog isoform e

    Status: VALIDATED

    Source sequence(s)
    AL031427

  8. NM_001382261.1 → NP_001369190.1  intraflagellar transport protein 25 homolog isoform f

    Status: VALIDATED

    Description
    Transcript Variant: This variant (18) encodes the longest isoform (f).
    Source sequence(s)
    AL031427
    Consensus CDS
    CCDS90960.1
    UniProtKB/TrEMBL
    X6R7Y7
    Related
    ENSP00000360429.2, ENST00000371378.6
    Conserved Domains (1) summary
    pfam00754
    Location:19 → 90
    F5_F8_type_C; F5/8 type C domain

  9. NM_016126.4 → NP_057210.2  intraflagellar transport protein 25 homolog isoform a

    See identical proteins and their annotated locations for NP_057210.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1), as well as variant 2, encodes isoform a.
    Source sequence(s)
    AL031427
    Consensus CDS
    CCDS41341.1
    UniProtKB/Swiss-Prot
    A6NG57, D3DQ45, Q9Y547, Q9Y684
    Related
    ENSP00000194214.5, ENST00000194214.10
    Conserved Domains (1) summary
    pfam00754
    Location:19 → 121
    F5_F8_type_C; F5/8 type C domain

RNA

  1. NR_133632.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) lacks two alternate exons compared to variant 1. This variant is represented as non-coding because the predicted protein does not meet RefSeq quality criteria.
    Source sequence(s)
    AL031427

  2. NR_133633.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) contains an alternate internal exon compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AL031427

  3. NR_167989.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL031427

  4. NR_167990.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL031427

  5. NR_167991.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL031427

  6. NR_167992.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL031427

  7. NR_167993.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL031427

  8. NR_167994.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL031427

  9. NR_167995.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL031427

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    53911576..53946305 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047422521.1 → XP_047278477.1  intraflagellar transport protein 25 homolog isoform X1

    UniProtKB/TrEMBL
    X6R7Y7

  2. XM_047422520.1 → XP_047278476.1  intraflagellar transport protein 25 homolog isoform X1

    UniProtKB/TrEMBL
    X6R7Y7

  3. XM_047422519.1 → XP_047278475.1  intraflagellar transport protein 25 homolog isoform X1

    UniProtKB/TrEMBL
    X6R7Y7

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    53793420..53829213 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054336988.1 → XP_054192963.1  intraflagellar transport protein 25 homolog isoform X1

    UniProtKB/TrEMBL
    X6R7Y7

  2. XM_054336989.1 → XP_054192964.1  intraflagellar transport protein 25 homolog isoform X1

    UniProtKB/TrEMBL
    X6R7Y7
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9Y547.1 GenPept UniProtKB/Swiss-Prot:Q9Y547

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