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rnf220a ring finger protein 220a [ Danio rerio (zebrafish) ]

Gene ID: 561654, updated on 2-Nov-2024

Summary

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Official Symbol
rnf220aprovided by ZNC
Official Full Name
ring finger protein 220aprovided by ZNC
Primary source
ZFIN:ZDB-GENE-060929-1006
See related
Ensembl:ENSDARG00000060929 AllianceGenome:ZFIN:ZDB-GENE-060929-1006
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:153254
Summary
Predicted to enable ubiquitin protein ligase activity. Involved in spinal cord patterning. Human ortholog(s) of this gene implicated in hypomyelinating leukodystrophy 23. Orthologous to human RNF220 (ring finger protein 220). [provided by Alliance of Genome Resources, Nov 2024]
Orthologs
human mouse all
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Genomic context

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See rnf220a in Genome Data Viewer
Location:
chromosome: 2
Exon count:
17
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 2 NC_007113.7 (33052216..33217935)
105 previous assembly GRCz10 (GCF_000002035.5) 2 NC_007113.6 (33206410..33233522)

Chromosome 2 - NC_007113.7Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC137487964 Neighboring gene uncharacterized LOC137487965 Neighboring gene Kruppel like factor 17 Neighboring gene solute carrier family 6 member 9 Neighboring gene coiled-coil domain containing 24

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. ZC4H2 stabilizes RNF220 to pattern ventral spinal cord through modulating Shh/Gli signaling. Ma P, et al. J Mol Cell Biol, 2020 Jun 11. PMID 31336385, 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
  5. 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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Homology

Clone Names

  • MGC153254

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables ubiquitin protein ligase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables ubiquitin-protein transferase activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in protein ubiquitination IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in spinal cord patterning IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
is_active_in cellular_component ND
No biological Data available
more info
  

General protein information

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Preferred Names
E3 ubiquitin-protein ligase RNF220a
NP_001070038.1
XP_021336297.1
XP_021336300.1
XP_021336301.1
XP_021336302.1
XP_021336303.1
XP_021336304.1
XP_021336307.1
XP_021336309.1

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_001076570.2 → NP_001070038.1  E3 ubiquitin-protein ligase RNF220a

    See identical proteins and their annotated locations for NP_001070038.1

    Status: VALIDATED

    Source sequence(s)
    BX324218, EH434809, EH537882
    UniProtKB/TrEMBL
    A0A8M1NAW6, Q08CD0
    Related
    ENSDARP00000080775.4, ENSDART00000086340.5
    Conserved Domains (2) summary
    pfam13923
    Location:255 → 293
    zf-C3HC4_2; Zinc finger, C3HC4 type (RING finger)
    pfam15926
    Location:12 → 176
    RNF220; E3 ubiquitin-protein ligase RNF220

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_007113.7 Reference GRCz11 Primary Assembly

    Range
    33052216..33217935
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_021480622.2 → XP_021336297.1  E3 ubiquitin-protein ligase RNF220a isoform X1

    UniProtKB/TrEMBL
    A0A8M9PXZ7
    Conserved Domains (2) summary
    pfam15926
    Location:224 → 507
    RNF220; E3 ubiquitin-protein ligase RNF220
    cd16563
    Location:648 → 682
    RING-HC_RNF220; RING finger, HC subclass, found in RING finger protein 220 (RNF220) and similar proteins

  2. XM_021480627.2 → XP_021336302.1  E3 ubiquitin-protein ligase RNF220a isoform X4

    UniProtKB/TrEMBL
    A0A8M9PY03
    Conserved Domains (2) summary
    pfam15926
    Location:224 → 507
    RNF220; E3 ubiquitin-protein ligase RNF220
    cd16563
    Location:585 → 625
    RING-HC_RNF220; RING finger, HC subclass, found in RING finger protein 220 (RNF220) and similar proteins

  3. XM_021480629.2 → XP_021336304.1  E3 ubiquitin-protein ligase RNF220a isoform X6

    UniProtKB/TrEMBL
    A0A8M9QFH8
    Conserved Domains (2) summary
    pfam15926
    Location:224 → 440
    RNF220; E3 ubiquitin-protein ligase RNF220
    cd16563
    Location:568 → 602
    RING-HC_RNF220; RING finger, HC subclass, found in RING finger protein 220 (RNF220) and similar proteins

  4. XM_021480625.2 → XP_021336300.1  E3 ubiquitin-protein ligase RNF220a isoform X2

    UniProtKB/TrEMBL
    A0A8M9QNG6
    Conserved Domains (2) summary
    pfam15926
    Location:224 → 481
    RNF220; E3 ubiquitin-protein ligase RNF220
    cd16563
    Location:622 → 656
    RING-HC_RNF220; RING finger, HC subclass, found in RING finger protein 220 (RNF220) and similar proteins

  5. XM_021480626.2 → XP_021336301.1  E3 ubiquitin-protein ligase RNF220a isoform X3

    UniProtKB/TrEMBL
    A0A8M9QJR7
    Conserved Domains (2) summary
    pfam15926
    Location:224 → 472
    RNF220; E3 ubiquitin-protein ligase RNF220
    cd16563
    Location:613 → 647
    RING-HC_RNF220; RING finger, HC subclass, found in RING finger protein 220 (RNF220) and similar proteins

  6. XM_021480632.2 → XP_021336307.1  E3 ubiquitin-protein ligase RNF220a isoform X7

    UniProtKB/TrEMBL
    A0A8M9PY10
    Conserved Domains (2) summary
    pfam15926
    Location:224 → 472
    RNF220; E3 ubiquitin-protein ligase RNF220
    cd16563
    Location:550 → 590
    RING-HC_RNF220; RING finger, HC subclass, found in RING finger protein 220 (RNF220) and similar proteins

  7. XM_021480628.2 → XP_021336303.1  E3 ubiquitin-protein ligase RNF220a isoform X5

    UniProtKB/TrEMBL
    A0A8M9Q9U5
    Conserved Domains (2) summary
    pfam15926
    Location:224 → 446
    RNF220; E3 ubiquitin-protein ligase RNF220
    cd16563
    Location:587 → 621
    RING-HC_RNF220; RING finger, HC subclass, found in RING finger protein 220 (RNF220) and similar proteins

  8. XM_021480634.2 → XP_021336309.1  E3 ubiquitin-protein ligase RNF220a isoform X8

    UniProtKB/TrEMBL
    A0A8M9QFI1
    Related
    ENSDARP00000116172.1, ENSDART00000134651.3
    Conserved Domains (2) summary
    pfam15926
    Location:224 → 446
    RNF220; E3 ubiquitin-protein ligase RNF220
    cd16563
    Location:524 → 564
    RING-HC_RNF220; RING finger, HC subclass, found in RING finger protein 220 (RNF220) and similar proteins
Nucleotide Protein Strain
Heading Accession and Version

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