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RNF220 ring finger protein 220 [ Homo sapiens (human) ]

Gene ID: 55182, updated on 1-Jun-2020

Summary

Official Symbol
RNF220provided by HGNC
Official Full Name
ring finger protein 220provided by HGNC
Primary source
HGNC:HGNC:25552
See related
Ensembl:ENSG00000187147 MIM:616136
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
C1orf164
Expression
Ubiquitous expression in brain (RPKM 10.7), testis (RPKM 7.1) and 25 other tissues See more
Orthologs

Genomic context

See RNF220 in Genome Data Viewer
Location:
1p34.1
Exon count:
22
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 1 NC_000001.11 (44405160..44651724)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (44870837..45117396)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene ERI1 exoribonuclease family member 3 Neighboring gene Sharpr-MPRA regulatory region 3045 Neighboring gene RNA, U6 small nuclear 369, pseudogene Neighboring gene uncharacterized LOC107984951 Neighboring gene VISTA enhancer hs280 Neighboring gene microRNA 5584 Neighboring gene uncharacterized LOC107984950 Neighboring gene transmembrane protein 53 Neighboring gene small nucleolar RNA, C/D box 145 Neighboring gene uncharacterized LOC105378690 Neighboring gene armadillo like helical domain containing 1 Neighboring gene RNA, U5F small nuclear 1

Genomic regions, transcripts, and products

Expression

  • Project title: 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ10597

Gene Ontology Provided by GOA

Function Evidence Code Pubs
metal ion binding IEA
Inferred from Electronic Annotation
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
ubiquitin protein ligase activity IEA
Inferred from Electronic Annotation
more info
 
ubiquitin-protein transferase activity ISS
Inferred from Sequence or Structural Similarity
more info
 
Process Evidence Code Pubs
positive regulation of canonical Wnt signaling pathway IMP
Inferred from Mutant Phenotype
more info
PubMed 
protein autoubiquitination ISS
Inferred from Sequence or Structural Similarity
more info
 
protein ubiquitination ISS
Inferred from Sequence or Structural Similarity
more info
 
Component Evidence Code Pubs
cytoplasm ISS
Inferred from Sequence or Structural Similarity
more info
 

General protein information

Preferred Names
E3 ubiquitin-protein ligase RNF220
Names
RING-type E3 ubiquitin transferase RNF220
NP_001306885.1
NP_001306886.1
NP_001363415.1
NP_001363416.1
NP_001363417.1
NP_001363418.1
NP_060620.2
XP_006710798.1
XP_011540000.1
XP_011540001.1
XP_011540002.1
XP_016857113.1
XP_016857114.1
XP_016857115.1

NCBI Reference Sequences (RefSeq)

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_001319956.1NP_001306885.1  E3 ubiquitin-protein ligase RNF220 isoform 1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR, compared to variant 1. Variants 1 and 2 encode the same isoform (1).
    Source sequence(s)
    BC034221, BC098266, CN285725
    Consensus CDS
    CCDS510.1
    UniProtKB/Swiss-Prot
    Q5VTB9
    Related
    ENSP00000347548.2, ENST00000355387.6
    Conserved Domains (2) summary
    pfam15926
    Location:217442
    RNF220; E3 ubiquitin-protein ligase RNF220
    cd16563
    Location:513553
    RING-HC_RNF220; RING finger, HC subclass, found in RING finger protein 220 (RNF220) and similar proteins
  2. NM_001319957.2NP_001306886.1  E3 ubiquitin-protein ligase RNF220 isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) contains an alternate 5' terminal exon, differs in the 5' UTR, lacks a portion of the coding region, uses a downstrean in-frame start codon and uses an alternate in-frame splice site in the coding region, compared to variant 1. It encodes isoform 2, which is shorter than isoform 1.
    Source sequence(s)
    AK025744, AK297228, BC034221, DC340836
    UniProtKB/Swiss-Prot
    Q5VTB9
    Conserved Domains (2) summary
    pfam13923
    Location:301339
    zf-C3HC4_2; Zinc finger, C3HC4 type (RING finger)
    pfam15926
    Location:1229
    RNF220; E3 ubiquitin-protein ligase RNF220
  3. NM_001376486.1NP_001363415.1  E3 ubiquitin-protein ligase RNF220 isoform 3

    Status: VALIDATED

    Source sequence(s)
    AL122004, AL359373, AL596225
  4. NM_001376487.1NP_001363416.1  E3 ubiquitin-protein ligase RNF220 isoform 3

    Status: VALIDATED

    Source sequence(s)
    AL122004, AL359373, AL596225
  5. NM_001376488.1NP_001363417.1  E3 ubiquitin-protein ligase RNF220 isoform 2

    Status: VALIDATED

    Source sequence(s)
    AL122004, AL359373, AL596225
  6. NM_001376489.1NP_001363418.1  E3 ubiquitin-protein ligase RNF220 isoform 4

    Status: VALIDATED

    Source sequence(s)
    AL122004, AL596225
    Related
    ENSP00000388533.2, ENST00000440132.2
  7. NM_018150.4NP_060620.2  E3 ubiquitin-protein ligase RNF220 isoform 1

    See identical proteins and their annotated locations for NP_060620.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (1). Variants 1 and 2 encode the same isoform (1).
    Source sequence(s)
    AK025744, BC034221, CN285725
    Consensus CDS
    CCDS510.1
    UniProtKB/Swiss-Prot
    Q5VTB9
    Related
    ENSP00000354872.2, ENST00000361799.7
    Conserved Domains (2) summary
    pfam15926
    Location:217442
    RNF220; E3 ubiquitin-protein ligase RNF220
    cd16563
    Location:513553
    RING-HC_RNF220; RING finger, HC subclass, found in RING finger protein 220 (RNF220) and similar proteins

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p13 Primary Assembly

    Range
    44405160..44651724
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006710735.4XP_006710798.1  E3 ubiquitin-protein ligase RNF220 isoform X3

    Conserved Domains (1) summary
    pfam15926
    Location:217316
    RNF220; E3 ubiquitin-protein ligase RNF220
  2. XM_011541699.1XP_011540001.1  E3 ubiquitin-protein ligase RNF220 isoform X1

    See identical proteins and their annotated locations for XP_011540001.1

    Conserved Domains (2) summary
    pfam15926
    Location:217468
    RNF220; E3 ubiquitin-protein ligase RNF220
    cd16563
    Location:539579
    RING-HC_RNF220; RING finger, HC subclass, found in RING finger protein 220 (RNF220) and similar proteins
  3. XM_017001625.2XP_016857114.1  E3 ubiquitin-protein ligase RNF220 isoform X2

    UniProtKB/Swiss-Prot
    Q5VTB9
    Conserved Domains (2) summary
    pfam15926
    Location:217442
    RNF220; E3 ubiquitin-protein ligase RNF220
    cd16563
    Location:513553
    RING-HC_RNF220; RING finger, HC subclass, found in RING finger protein 220 (RNF220) and similar proteins
  4. XM_017001624.1XP_016857113.1  E3 ubiquitin-protein ligase RNF220 isoform X2

    UniProtKB/Swiss-Prot
    Q5VTB9
    Conserved Domains (2) summary
    pfam15926
    Location:217442
    RNF220; E3 ubiquitin-protein ligase RNF220
    cd16563
    Location:513553
    RING-HC_RNF220; RING finger, HC subclass, found in RING finger protein 220 (RNF220) and similar proteins
  5. XM_011541700.1XP_011540002.1  E3 ubiquitin-protein ligase RNF220 isoform X1

    See identical proteins and their annotated locations for XP_011540002.1

    Conserved Domains (2) summary
    pfam15926
    Location:217468
    RNF220; E3 ubiquitin-protein ligase RNF220
    cd16563
    Location:539579
    RING-HC_RNF220; RING finger, HC subclass, found in RING finger protein 220 (RNF220) and similar proteins
  6. XM_011541698.2XP_011540000.1  E3 ubiquitin-protein ligase RNF220 isoform X1

    See identical proteins and their annotated locations for XP_011540000.1

    Conserved Domains (2) summary
    pfam15926
    Location:217468
    RNF220; E3 ubiquitin-protein ligase RNF220
    cd16563
    Location:539579
    RING-HC_RNF220; RING finger, HC subclass, found in RING finger protein 220 (RNF220) and similar proteins
  7. XM_017001626.1XP_016857115.1  E3 ubiquitin-protein ligase RNF220 isoform X5

RNA

  1. XR_001737278.2 RNA Sequence

  2. XR_946692.3 RNA Sequence

  3. XR_001737281.2 RNA Sequence

  4. XR_001737280.2 RNA Sequence

  5. XR_001737279.2 RNA Sequence

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