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klhl13 kelch-like family member 13 [ Danio rerio (zebrafish) ]

Gene ID: 323951, updated on 12-Sep-2024

Summary

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Official Symbol
klhl13provided by ZNC
Official Full Name
kelch-like family member 13provided by ZNC
Primary source
ZFIN:ZDB-GENE-030131-2671
See related
Ensembl:ENSDARG00000086463 Ensembl:ENSDARG00000103786 AllianceGenome:ZFIN:ZDB-GENE-030131-2671
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
wu:fc15b07; zgc:163008
Summary
Is expressed in olfactory bulb and telencephalon. Orthologous to several human genes including KLHL13 (kelch like family member 13). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs
human mouse all
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Genomic context

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See klhl13 in Genome Data Viewer
Location:
chromosome: 5
Exon count:
10
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 5 NC_007116.7 (37343614..37440460)
105 previous assembly GRCz10 (GCF_000002035.5) 5 NC_007116.6 (36743448..36840307)

Chromosome 5 - NC_007116.7Genomic Context describing neighboring genes Neighboring gene zgc:163098 Neighboring gene WD repeat domain 44 Neighboring gene uncharacterized LOC137495610 Neighboring gene si:ch1073-224n8.1 Neighboring gene leucine-rich repeat neuronal protein 4

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. Saltatory evolution of the ectodermal neural cortex gene family at the vertebrate origin. Feiner N, et al. Genome Biol Evol, 2013. PMID 23843192, Free PMC Article
  2. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
  3. 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
  4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables cullin family protein binding IBA
Inferred from Biological aspect of Ancestor
more info
  
contributes_to ubiquitin-protein transferase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
involved_in protein ubiquitination IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in regulation of cytokinesis IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
part_of Cul3-RING ubiquitin ligase complex IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
kelch-like protein 13

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_001099229.1 → NP_001092699.2  kelch-like protein 13 isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR and has differences in the coding region but maintains the reading frame, compared to variant 1. This variant encodes isoform 2, which is shorter than isoform 1.
    Source sequence(s)
    BC141798
    UniProtKB/TrEMBL
    A0A8M1NDF2, A5D8S9
    Related
    ENSDARP00000112236.2, ENSDART00000128122.3
    Conserved Domains (6) summary
    smart00612
    Location:429 → 474
    Kelch; Kelch domain
    PHA03098
    Location:78 → 621
    PHA03098; kelch-like protein; Provisional
    sd00038
    Location:365 → 413
    Kelch; KELCH repeat [structural motif]
    pfam00651
    Location:68 → 174
    BTB; BTB/POZ domain
    pfam01344
    Location:364 → 414
    Kelch_1; Kelch motif
    pfam07707
    Location:182 → 283
    BACK; BTB And C-terminal Kelch

  2. NM_001244754.1 → NP_001231683.1  kelch-like protein 13 isoform 1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (1).
    Source sequence(s)
    EH115172, FP017278
    UniProtKB/TrEMBL
    A0A8M1P401, A5D8S9
    Related
    ENSDARP00000131113.1, ENSDART00000164459.2
    Conserved Domains (6) summary
    smart00612
    Location:457 → 502
    Kelch; Kelch domain
    PHA03098
    Location:106 → 649
    PHA03098; kelch-like protein; Provisional
    sd00038
    Location:393 → 441
    Kelch; KELCH repeat [structural motif]
    pfam00651
    Location:96 → 202
    BTB; BTB/POZ domain
    pfam01344
    Location:392 → 442
    Kelch_1; Kelch motif
    pfam07707
    Location:210 → 311
    BACK; BTB And C-terminal Kelch

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_007116.7 Reference GRCz11 Primary Assembly

    Range
    37343614..37440460
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017356040.3 → XP_017211529.1  kelch-like protein 13 isoform X2

    UniProtKB/TrEMBL
    A0A0R4ICR0, A0A8M6YY58, A5D8S9

  2. XM_068221099.1 → XP_068077200.1  kelch-like protein 13 isoform X5

  3. XM_005165275.5 → XP_005165332.1  kelch-like protein 13 isoform X5

    UniProtKB/TrEMBL
    A0A8M2BCL7, A5D8S9
    Conserved Domains (6) summary
    smart00612
    Location:433 → 478
    Kelch; Kelch domain
    PHA03098
    Location:82 → 625
    PHA03098; kelch-like protein; Provisional
    sd00038
    Location:369 → 417
    Kelch; KELCH repeat [structural motif]
    pfam00651
    Location:72 → 178
    BTB; BTB/POZ domain
    pfam01344
    Location:368 → 418
    Kelch_1; Kelch motif
    pfam07707
    Location:186 → 287
    BACK; BTB And C-terminal Kelch

  4. XM_005165273.5 → XP_005165330.1  kelch-like protein 13 isoform X3

    UniProtKB/TrEMBL
    A0A8M2BCI0, A5D8S9
    Conserved Domains (6) summary
    smart00612
    Location:453 → 498
    Kelch; Kelch domain
    PHA03098
    Location:102 → 645
    PHA03098; kelch-like protein; Provisional
    sd00038
    Location:389 → 437
    Kelch; KELCH repeat [structural motif]
    pfam00651
    Location:92 → 198
    BTB; BTB/POZ domain
    pfam01344
    Location:388 → 438
    Kelch_1; Kelch motif
    pfam07707
    Location:206 → 307
    BACK; BTB And C-terminal Kelch

  5. XM_005165276.5 → XP_005165333.1  kelch-like protein 13 isoform X6

    UniProtKB/TrEMBL
    A0A8M2BCJ7, A5D8S9, F1REQ9
    Conserved Domains (6) summary
    smart00612
    Location:429 → 474
    Kelch; Kelch domain
    PHA03098
    Location:78 → 621
    PHA03098; kelch-like protein; Provisional
    sd00038
    Location:365 → 413
    Kelch; KELCH repeat [structural motif]
    pfam00651
    Location:68 → 174
    BTB; BTB/POZ domain
    pfam01344
    Location:364 → 414
    Kelch_1; Kelch motif
    pfam07707
    Location:182 → 283
    BACK; BTB And C-terminal Kelch

  6. XM_005165272.5 → XP_005165329.1  kelch-like protein 13 isoform X1

    UniProtKB/TrEMBL
    A0A2R8Q9E7, A0A8M2BCQ1, A5D8S9
    Conserved Domains (6) summary
    smart00612
    Location:468 → 513
    Kelch; Kelch domain
    PHA03098
    Location:117 → 660
    PHA03098; kelch-like protein; Provisional
    sd00038
    Location:404 → 452
    Kelch; KELCH repeat [structural motif]
    pfam00651
    Location:107 → 213
    BTB; BTB/POZ domain
    pfam01344
    Location:403 → 453
    Kelch_1; Kelch motif
    pfam07707
    Location:221 → 322
    BACK; BTB And C-terminal Kelch

  7. XM_005165274.5 → XP_005165331.1  kelch-like protein 13 isoform X4

    UniProtKB/TrEMBL
    A0A0R4IP02, A0A8M2BCJ0, A5D8S9
    Related
    ENSDARP00000137085.2, ENSDART00000171826.2
    Conserved Domains (6) summary
    smart00612
    Location:444 → 489
    Kelch; Kelch domain
    PHA03098
    Location:93 → 636
    PHA03098; kelch-like protein; Provisional
    sd00038
    Location:380 → 428
    Kelch; KELCH repeat [structural motif]
    pfam00651
    Location:83 → 189
    BTB; BTB/POZ domain
    pfam01344
    Location:379 → 429
    Kelch_1; Kelch motif
    pfam07707
    Location:197 → 298
    BACK; BTB And C-terminal Kelch

Reference GRCz11 ALT_DRER_TU_2

Genomic

  1. NW_018395241.1 Reference GRCz11 ALT_DRER_TU_2

    Range
    219095..231501
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCz11 ALT_DRER_TU_3

Genomic

  1. NW_018395375.1 Reference GRCz11 ALT_DRER_TU_3

    Range
    234275..330436
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version

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