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RNF13 ring finger protein 13 [ Homo sapiens (human) ]

Gene ID: 11342, updated on 19-Jun-2019

Summary

Official Symbol
RNF13provided by HGNC
Official Full Name
ring finger protein 13provided by HGNC
Primary source
HGNC:HGNC:10057
See related
Ensembl:ENSG00000082996 MIM:609247
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
RZF; EIEE73
Summary
The protein encoded by this gene contains a RING zinc finger, a motif known to be involved in protein-protein interactions. The specific function of this gene has not yet been determined. Alternatively spliced transcript variants that encode the same protein have been reported. A pseudogene, which is also located on chromosome 3, has been defined for this gene. [provided by RefSeq, Jul 2008]
Expression
Ubiquitous expression in thyroid (RPKM 22.1), brain (RPKM 22.0) and 25 other tissues See more
Orthologs

Genomic context

See RNF13 in Genome Data Viewer
Location:
3q25.1
Exon count:
16
Annotation release Status Assembly Chr Location
109.20190607 current GRCh38.p13 (GCF_000001405.39) 3 NC_000003.12 (149812688..149962139)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (149530475..149679926)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene COMM domain containing 2 Neighboring gene ankyrin repeat and ubiquitin domain containing 1 Neighboring gene RNA, U6 small nuclear 507, pseudogene Neighboring gene RNA, U6 small nuclear 720, pseudogene Neighboring gene uncharacterized LOC105374152 Neighboring gene nucleophosmin 1 pseudogene 29 Neighboring gene uncharacterized LOC646903 Neighboring gene profilin 2

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 FunctionsWhat's a GeneRIF?

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ93817, MGC13689

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 IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
ubiquitin-protein transferase activity ISS
Inferred from Sequence or Structural Similarity
more info
 
Process Evidence Code Pubs
protein autoubiquitination ISS
Inferred from Sequence or Structural Similarity
more info
 
ubiquitin-dependent protein catabolic process IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
Golgi membrane IEA
Inferred from Electronic Annotation
more info
 
cytosol IDA
Inferred from Direct Assay
more info
 
endoplasmic reticulum membrane IEA
Inferred from Electronic Annotation
more info
 
integral component of membrane IEA
Inferred from Electronic Annotation
more info
 
intracellular membrane-bounded organelle IDA
Inferred from Direct Assay
more info
 
late endosome membrane ISS
Inferred from Sequence or Structural Similarity
more info
 
lysosomal membrane HDA PubMed 
lysosomal membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
lysosomal membrane ISS
Inferred from Sequence or Structural Similarity
more info
 
nuclear inner membrane IEA
Inferred from Electronic Annotation
more info
 
nucleoplasm IDA
Inferred from Direct Assay
more info
 

General protein information

Preferred Names
E3 ubiquitin-protein ligase RNF13
Names
RING zinc finger protein
RING-type E3 ubiquitin transferase RNF13
NP_009213.1
NP_899237.1
NP_899239.2
XP_005247149.1
XP_011510675.1
XP_011510676.1
XP_011510678.1
XP_016861143.1
XP_016861144.1
XP_016861145.1
XP_016861146.1
XP_016861147.1
XP_016861149.1
XP_016861150.1
XP_024309100.1

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_007282.4NP_009213.1  E3 ubiquitin-protein ligase RNF13 isoform 1

    See identical proteins and their annotated locations for NP_009213.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longer transcript. Both variants 1 and 4 encode the same protein.
    Source sequence(s)
    AC117395, BC009803, CB109037, DA031838
    Consensus CDS
    CCDS3146.1
    UniProtKB/Swiss-Prot
    O43567
    Related
    ENSP00000341361.3, ENST00000344229.7
    Conserved Domains (2) summary
    cd02123
    Location:23180
    PA_C_RZF_like; PA_C-RZF_ like: Protease-associated (PA) domain C_RZF-like. This group includes various PA domain-containing proteins similar to C-RZF (chicken embryo RING zinc finger) protein. These proteins contain a C3H2C3 RING finger. C-RZF is expressed in embryo ...
    cd16797
    Location:238283
    RING-H2_RNF167; RING finger, H2 subclass, found in RING finger protein 167 (RNF167) and similar proteins
  2. NM_183381.2NP_899237.1  E3 ubiquitin-protein ligase RNF13 isoform 1

    See identical proteins and their annotated locations for NP_899237.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) lacks an exon in the 5' UTR compared to variant 1. Both variants 1 and 4 encode the same protein.
    Source sequence(s)
    AC117395, AK090638, DA031838
    Consensus CDS
    CCDS3146.1
    UniProtKB/Swiss-Prot
    O43567
    Related
    ENSP00000376628.3, ENST00000392894.7
    Conserved Domains (2) summary
    cd02123
    Location:23180
    PA_C_RZF_like; PA_C-RZF_ like: Protease-associated (PA) domain C_RZF-like. This group includes various PA domain-containing proteins similar to C-RZF (chicken embryo RING zinc finger) protein. These proteins contain a C3H2C3 RING finger. C-RZF is expressed in embryo ...
    cd16797
    Location:238283
    RING-H2_RNF167; RING finger, H2 subclass, found in RING finger protein 167 (RNF167) and similar proteins
  3. NM_183383.2NP_899239.2  E3 ubiquitin-protein ligase RNF13 isoform 3

    Status: REVIEWED

    Source sequence(s)
    AC117395, AK090638, AK090771, CB109037, DA031838
    Consensus CDS
    CCDS87154.1

RefSeqs of Annotated Genomes: Homo sapiens 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_000003.12 Reference GRCh38.p13 Primary Assembly

    Range
    149812688..149962139
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017005657.1XP_016861146.1  E3 ubiquitin-protein ligase RNF13 isoform X2

    UniProtKB/Swiss-Prot
    O43567
    Conserved Domains (2) summary
    cl17238
    Location:119164
    RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain
    cl28883
    Location:2161
    PA; PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. ...
  2. XM_017005658.1XP_016861147.1  E3 ubiquitin-protein ligase RNF13 isoform X2

    UniProtKB/Swiss-Prot
    O43567
    Conserved Domains (2) summary
    cl17238
    Location:119164
    RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain
    cl28883
    Location:2161
    PA; PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. ...
  3. XM_017005655.1XP_016861144.1  E3 ubiquitin-protein ligase RNF13 isoform X1

    UniProtKB/Swiss-Prot
    O43567
    Conserved Domains (2) summary
    cd02123
    Location:23180
    PA_C_RZF_like; PA_C-RZF_ like: Protease-associated (PA) domain C_RZF-like. This group includes various PA domain-containing proteins similar to C-RZF (chicken embryo RING zinc finger) protein. These proteins contain a C3H2C3 RING finger. C-RZF is expressed in embryo ...
    cd16797
    Location:238283
    RING-H2_RNF167; RING finger, H2 subclass, found in RING finger protein 167 (RNF167) and similar proteins
  4. XM_011512373.2XP_011510675.1  E3 ubiquitin-protein ligase RNF13 isoform X1

    See identical proteins and their annotated locations for XP_011510675.1

    UniProtKB/Swiss-Prot
    O43567
    Conserved Domains (2) summary
    cd02123
    Location:23180
    PA_C_RZF_like; PA_C-RZF_ like: Protease-associated (PA) domain C_RZF-like. This group includes various PA domain-containing proteins similar to C-RZF (chicken embryo RING zinc finger) protein. These proteins contain a C3H2C3 RING finger. C-RZF is expressed in embryo ...
    cd16797
    Location:238283
    RING-H2_RNF167; RING finger, H2 subclass, found in RING finger protein 167 (RNF167) and similar proteins
  5. XM_017005656.1XP_016861145.1  E3 ubiquitin-protein ligase RNF13 isoform X2

    UniProtKB/Swiss-Prot
    O43567
    Conserved Domains (2) summary
    cl17238
    Location:119164
    RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain
    cl28883
    Location:2161
    PA; PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. ...
  6. XM_017005654.1XP_016861143.1  E3 ubiquitin-protein ligase RNF13 isoform X1

    UniProtKB/Swiss-Prot
    O43567
    Conserved Domains (2) summary
    cd02123
    Location:23180
    PA_C_RZF_like; PA_C-RZF_ like: Protease-associated (PA) domain C_RZF-like. This group includes various PA domain-containing proteins similar to C-RZF (chicken embryo RING zinc finger) protein. These proteins contain a C3H2C3 RING finger. C-RZF is expressed in embryo ...
    cd16797
    Location:238283
    RING-H2_RNF167; RING finger, H2 subclass, found in RING finger protein 167 (RNF167) and similar proteins
  7. XM_011512374.2XP_011510676.1  E3 ubiquitin-protein ligase RNF13 isoform X1

    See identical proteins and their annotated locations for XP_011510676.1

    UniProtKB/Swiss-Prot
    O43567
    Conserved Domains (2) summary
    cd02123
    Location:23180
    PA_C_RZF_like; PA_C-RZF_ like: Protease-associated (PA) domain C_RZF-like. This group includes various PA domain-containing proteins similar to C-RZF (chicken embryo RING zinc finger) protein. These proteins contain a C3H2C3 RING finger. C-RZF is expressed in embryo ...
    cd16797
    Location:238283
    RING-H2_RNF167; RING finger, H2 subclass, found in RING finger protein 167 (RNF167) and similar proteins
  8. XM_017005660.1XP_016861149.1  E3 ubiquitin-protein ligase RNF13 isoform X3

    Conserved Domains (2) summary
    pfam13639
    Location:107151
    zf-RING_2; Ring finger domain
    cl10459
    Location:149
    Peptidases_S8_S53; Peptidase domain in the S8 and S53 families
  9. XM_005247092.4XP_005247149.1  E3 ubiquitin-protein ligase RNF13 isoform X2

    See identical proteins and their annotated locations for XP_005247149.1

    UniProtKB/Swiss-Prot
    O43567
    Conserved Domains (2) summary
    cl17238
    Location:119164
    RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain
    cl28883
    Location:2161
    PA; PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. ...
  10. XM_011512376.2XP_011510678.1  E3 ubiquitin-protein ligase RNF13 isoform X2

    See identical proteins and their annotated locations for XP_011510678.1

    UniProtKB/Swiss-Prot
    O43567
    Related
    ENSP00000355268.6, ENST00000361785.10
    Conserved Domains (2) summary
    cl17238
    Location:119164
    RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain
    cl28883
    Location:2161
    PA; PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. ...
  11. XM_024453332.1XP_024309100.1  E3 ubiquitin-protein ligase RNF13 isoform X1

    Conserved Domains (2) summary
    cd02123
    Location:23180
    PA_C_RZF_like; PA_C-RZF_ like: Protease-associated (PA) domain C_RZF-like. This group includes various PA domain-containing proteins similar to C-RZF (chicken embryo RING zinc finger) protein. These proteins contain a C3H2C3 RING finger. C-RZF is expressed in embryo ...
    cd16797
    Location:238283
    RING-H2_RNF167; RING finger, H2 subclass, found in RING finger protein 167 (RNF167) and similar proteins
  12. XM_017005661.2XP_016861150.1  E3 ubiquitin-protein ligase RNF13 isoform X4

RNA

  1. XR_001739990.2 RNA Sequence

  2. XR_002959487.1 RNA Sequence

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_183382.1: Suppressed sequence

    Description
    NM_183382.1: This RefSeq was permanently suppressed because it is a nonsense-mediated mRNA decay (NMD) candidate.
  2. NM_183384.2: Suppressed sequence

    Description
    NM_183384.2: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.
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