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YIF1A Yip1 interacting factor homolog A, membrane trafficking protein [ Homo sapiens (human) ]

Gene ID: 10897, updated on 3-Nov-2024

Summary

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Official Symbol
YIF1Aprovided by HGNC
Official Full Name
Yip1 interacting factor homolog A, membrane trafficking proteinprovided by HGNC
Primary source
HGNC:HGNC:16688
See related
Ensembl:ENSG00000174851 MIM:611484; AllianceGenome:HGNC:16688
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
54TM; YIF1; YIF1P; FinGER7
Summary
Predicted to be involved in endoplasmic reticulum to Golgi vesicle-mediated transport. Located in Golgi apparatus and endoplasmic reticulum-Golgi intermediate compartment. [provided by Alliance of Genome Resources, Nov 2024]
Expression
Ubiquitous expression in duodenum (RPKM 11.2), liver (RPKM 9.6) and 25 other tissues See more
Orthologs
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Genomic context

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See YIF1A in Genome Data Viewer
Location:
11q13.2
Exon count:
8
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (66284580..66289143, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (66278243..66282806, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (66052051..66056614, complement)

Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5041 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:66036329-66037210 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr11:66039357-66040556 Neighboring gene uncharacterized LOC107984340 Neighboring gene RAB1B, member RAS oncogene family Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3585 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:66049917-66050420 Neighboring gene cornichon family AMPA receptor auxiliary protein 2 Neighboring gene Sharpr-MPRA regulatory region 5915 Neighboring gene transmembrane protein 151A Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3587 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:66083264-66083960 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3588 Neighboring gene CD248 molecule

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. YIF1A is involved in the maintenance of the Golgi structure.
    Title: YIPF5 and YIF1A recycle between the ER and the Golgi apparatus and are involved in the maintenance of the Golgi structure.
  2. Human Yip1A (YIPF5) interacts with and localizes human Yif1 (YIF1A) to the Golgi apparatus.
    Title: Human Yip1A specifies the localization of Yif1 to the Golgi apparatus.
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

EBI GWAS Catalog

Description
Large-scale genome-wide association analysis of bipolar disorder identifies a new susceptibility locus near ODZ4.
EBI GWAS Catalog

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 protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in endoplasmic reticulum to Golgi vesicle-mediated transport IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in protein transport IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
is_active_in COPII-coated ER to Golgi transport vesicle IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in Golgi apparatus IDA
Inferred from Direct Assay
more info
  
is_active_in Golgi membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in endoplasmic reticulum membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in endoplasmic reticulum membrane TAS
Traceable Author Statement
more info
  
is_active_in endoplasmic reticulum-Golgi intermediate compartment IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in endoplasmic reticulum-Golgi intermediate compartment IDA
Inferred from Direct Assay
more info
 PubMed 
located_in endoplasmic reticulum-Golgi intermediate compartment membrane IEA
Inferred from Electronic Annotation
more info
  
located_in intracellular membrane-bounded organelle IDA
Inferred from Direct Assay
more info
  

General protein information

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Preferred Names
protein YIF1A
Names
54TMp
YIP1-interacting factor homolog A
Yip1p-interacting factor
putative Rab5-interacting protein
putative transmembrane protein 54TMp

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_001300861.2 → NP_001287790.1  protein YIF1A isoform 2

    See identical proteins and their annotated locations for NP_001287790.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an alternate in-frame exon compared to variant 1. The resulting isoform (2) has the same N- and C-termini but is shorter compared to isoform 1.
    Source sequence(s)
    AK226003, BG397210, DB085949
    Consensus CDS
    CCDS73325.1
    UniProtKB/TrEMBL
    A6NGW1, A8K509
    Related
    ENSP00000352437.6, ENST00000359461.10
    Conserved Domains (1) summary
    pfam03878
    Location:57 → 235
    YIF1; YIF1

  2. NM_020470.3 → NP_065203.2  protein YIF1A isoform 1

    See identical proteins and their annotated locations for NP_065203.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AK291124, BC001299, BC009892
    Consensus CDS
    CCDS8132.1
    UniProtKB/Swiss-Prot
    A6NM00, O95070, Q96G83, Q9BVD0
    UniProtKB/TrEMBL
    A8K509
    Related
    ENSP00000366098.4, ENST00000376901.9
    Conserved Domains (1) summary
    pfam03878
    Location:57 → 287
    YIF1; YIF1

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_000011.10 Reference GRCh38.p14 Primary Assembly

    Range
    66284580..66289143 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060935.1 Alternate T2T-CHM13v2.0

    Range
    66278243..66282806 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
O95070.2 GenPept UniProtKB/Swiss-Prot:O95070

Gene LinkOut

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Chemical Information
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