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pkhd1l1.2 PKHD1 like 1, tandem duplicate 2 [ Danio rerio (zebrafish) ]

Gene ID: 569167, updated on 21-Sep-2024

Summary

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Official Symbol
pkhd1l1.2provided by ZNC
Official Full Name
PKHD1 like 1, tandem duplicate 2provided by ZNC
Primary source
ZFIN:ZDB-GENE-060503-789
See related
Ensembl:ENSDARG00000040004 AllianceGenome:ZFIN:ZDB-GENE-060503-789
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
pkhd-l2; si:ch211-244a23.1
Summary
Predicted to be located in membrane. Predicted to be integral component of membrane. [provided by Alliance of Genome Resources, Apr 2022]
Orthologs
all
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Genomic context

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See pkhd1l1.2 in Genome Data Viewer
Location:
chromosome: 19
Exon count:
77
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 19 NC_007130.7 (22934621..22997680)
105 previous assembly GRCz10 (GCF_000002035.5) 19 NC_007130.6 (23350298..23413329)

Chromosome 19 - NC_007130.7Genomic Context describing neighboring genes Neighboring gene NudC domain containing 1 Neighboring gene PKHD1 like 1, tandem duplicate 1 Neighboring gene growth differentiation factor 6b Neighboring gene uncharacterized LOC137488437

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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

Bibliography

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Related articles in PubMed

  1. 15000 unique zebrafish EST clusters and their future use in microarray for profiling gene expression patterns during embryogenesis. Lo J, et al. Genome Res, 2003 Mar. PMID 12618376, Free PMC Article
  2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
  3. Gene evolution and gene expression after whole genome duplication in fish: the PhyloFish database. Pasquier J, et al. BMC Genomics, 2016 May 18. PMID 27189481, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by ZFIN

Process Evidence Code Pubs
involved_in nervous system development IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in membrane IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
PKHD1 like 1, tandem duplicate 2
Names
polycystic kidney and hepatic disease-like 2

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_001130399.1 → NP_001123871.1  PKHD1 like 1, tandem duplicate 2 isoform 1 precursor

    Status: PROVISIONAL

    Source sequence(s)
    BX649562
    UniProtKB/TrEMBL
    A0A8M1NI39, A8E7R5
    Related
    ENSDARP00000050455.8, ENSDART00000050456.10
    Conserved Domains (5) summary
    cd00603
    Location:1874 → 1961
    IPT_PCSR; IPT domain of Plexins and Cell Surface Receptors (PCSR) and related proteins . This subgroup contains IPT domains of plexins, receptors, like the plasminogen-related growth factor receptors, the hepatocyte growth factor-scatter factors, and the ...
    pfam01833
    Location:1690 → 1771
    TIG; IPT/TIG domain
    pfam10162
    Location:1968 → 2086
    G8; G8 domain
    pfam13229
    Location:2999 → 3105
    Beta_helix; Right handed beta helix region
    cl19115
    Location:1183 → 1280
    Cupredoxin; Cupredoxin superfamily

  2. NM_001166323.1 → NP_001159795.1  PKHD1 like 1, tandem duplicate 2 isoform 2 precursor

    See identical proteins and their annotated locations for NP_001159795.1

    Status: PROVISIONAL

    Source sequence(s)
    EU864430
    UniProtKB/TrEMBL
    D3G896
    Related
    ENSDARP00000105859.3, ENSDART00000124987.3
    Conserved Domains (5) summary
    cd00603
    Location:2047 → 2134
    IPT_PCSR; IPT domain of Plexins and Cell Surface Receptors (PCSR) and related proteins . This subgroup contains IPT domains of plexins, receptors, like the plasminogen-related growth factor receptors, the hepatocyte growth factor-scatter factors, and the ...
    pfam01833
    Location:1871 → 1952
    TIG; IPT/TIG domain
    pfam10162
    Location:2141 → 2259
    G8; G8 domain
    pfam13229
    Location:3284 → 3390
    Beta_helix; Right handed beta helix region
    cl19115
    Location:1359 → 1461
    Cupredoxin; Cupredoxin superfamily

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
    22934621..22997680
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_068215167.1 → XP_068071268.1  PKHD1 like 1, tandem duplicate 2 isoform X1

    Related
    ENSDARP00000125726.1, ENSDART00000151737.4
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

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