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pdcd6ip programmed cell death 6 interacting protein [ Danio rerio (zebrafish) ]

Gene ID: 406669, updated on 28-Oct-2024

Summary

Official Symbol
pdcd6ipprovided by ZNC
Official Full Name
programmed cell death 6 interacting proteinprovided by ZNC
Primary source
ZFIN:ZDB-GENE-040426-2678
See related
Ensembl:ENSDARG00000025269 AllianceGenome:ZFIN:ZDB-GENE-040426-2678
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
zgc:63638; wu:fb70d03; wu:fy65h02
Summary
Predicted to be involved in mitotic cytokinesis. Predicted to act upstream of or within multivesicular body sorting pathway. Predicted to be active in endosome. Is expressed in cloaca; epidermis; otic vesicle; and sensory system. Human ortholog(s) of this gene implicated in primary autosomal recessive microcephaly. Orthologous to human PDCD6IP (programmed cell death 6 interacting protein). [provided by Alliance of Genome Resources, Oct 2024]
Orthologs
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Genomic context

See pdcd6ip in Genome Data Viewer
Location:
chromosome: 19
Exon count:
18
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 19 NC_007130.7 (42847305..42875185)
105 previous assembly GRCz10 (GCF_000002035.5) 19 NC_007130.6 (43277837..43305748)

Chromosome 19 - NC_007130.7Genomic Context describing neighboring genes Neighboring gene cytoplasmic linker associated protein 2 Neighboring gene upstream binding protein 1 Neighboring gene cAMP-regulated phosphoprotein, 21 Neighboring gene microRNA 128-2 Neighboring gene zinc finger TRAF-type containing 1

Genomic regions, transcripts, and products

Expression

  • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • BioProject: PRJEB1986
  • Analysis date: Fri Dec 8 19:48:10 2017

General gene information

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables molecular_function ND
No biological Data available
more info
 
Process Evidence Code Pubs
involved_in mitotic cytokinesis IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of_or_within multivesicular body sorting pathway IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
is_active_in cellular_component ND
No biological Data available
more info
 
is_active_in endosome IBA
Inferred from Biological aspect of Ancestor
more info
 

General protein information

Preferred Names
programmed cell death 6-interacting protein

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_213360.4NP_998525.2  programmed cell death 6-interacting protein

    Status: VALIDATED

    Source sequence(s)
    CU469582
    UniProtKB/TrEMBL
    A0A8N1Z4B2, B8JLR1, F1Q5T7
    Related
    ENSDARP00000121990.1, ENSDART00000135164.3
    Conserved Domains (4) summary
    cd09235
    Location:357695
    V_Alix; Middle V-domain of mammalian Alix and related domains are dimerization and protein interaction modules
    cd09240
    Location:2342
    BRO1_Alix; Protein-interacting, N-terminal, Bro1-like domain of mammalian Alix and related domains
    pfam13949
    Location:410698
    ALIX_LYPXL_bnd; ALIX V-shaped domain binding to HIV
    cl23782
    Location:778844
    RCR; Chitin synthesis regulation, resistance to Congo red

RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007130.7 Reference GRCz11 Primary Assembly

    Range
    42847305..42875185
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005159737.5XP_005159794.1  programmed cell death 6-interacting protein isoform X1

    See identical proteins and their annotated locations for XP_005159794.1

    UniProtKB/TrEMBL
    A0A8M2B6D5
    Conserved Domains (4) summary
    cd09235
    Location:362700
    V_Alix; Middle V-domain of mammalian Alix and related domains are dimerization and protein interaction modules
    cd09240
    Location:2347
    BRO1_Alix; Protein-interacting, N-terminal, Bro1-like domain of mammalian Alix and related domains
    pfam13949
    Location:415703
    ALIX_LYPXL_bnd; ALIX V-shaped domain binding to HIV
    cl23782
    Location:783849
    RCR; Chitin synthesis regulation, resistance to Congo red
  2. XM_009294414.4XP_009292689.1  programmed cell death 6-interacting protein isoform X1

    See identical proteins and their annotated locations for XP_009292689.1

    UniProtKB/TrEMBL
    A0A8M2B6D5
    Conserved Domains (4) summary
    cd09235
    Location:362700
    V_Alix; Middle V-domain of mammalian Alix and related domains are dimerization and protein interaction modules
    cd09240
    Location:2347
    BRO1_Alix; Protein-interacting, N-terminal, Bro1-like domain of mammalian Alix and related domains
    pfam13949
    Location:415703
    ALIX_LYPXL_bnd; ALIX V-shaped domain binding to HIV
    cl23782
    Location:783849
    RCR; Chitin synthesis regulation, resistance to Congo red
  3. XM_068215110.1XP_068071211.1  programmed cell death 6-interacting protein isoform X2