Format

Send to:

Choose Destination

RNF38 ring finger protein 38 [ Homo sapiens (human) ]

Gene ID: 152006, updated on 17-Jun-2019

Summary

Official Symbol
RNF38provided by HGNC
Official Full Name
ring finger protein 38provided by HGNC
Primary source
HGNC:HGNC:18052
See related
Ensembl:ENSG00000137075 MIM:612488
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
Summary
This gene encodes a protein with a coiled-coil motif and a RING-H2 motif (C3H2C2) at its carboxy-terminus. The RING motif is a zinc-binding domain found in a large set of proteins playing roles in diverse cellular processes including oncogenesis, development, signal transduction, and apoptosis. Multiple transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Dec 2008]
Expression
Ubiquitous expression in testis (RPKM 25.8), ovary (RPKM 14.9) and 25 other tissues See more
Orthologs

Genomic context

See RNF38 in Genome Data Viewer
Location:
9p13.2
Exon count:
19
Annotation release Status Assembly Chr Location
109.20190607 current GRCh38.p13 (GCF_000001405.39) 9 NC_000009.12 (36336398..36487384, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 9 NC_000009.11 (36336395..36487568, complement)

Chromosome 9 - NC_000009.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102724322 Neighboring gene glucosamine (UDP-N-acetyl)-2-epimerase/N-acetylmannosamine kinase Neighboring gene RNA, U4 small nuclear 53, pseudogene Neighboring gene high mobility group box 3 pseudogene 24 Neighboring gene mitochondrial ribosomal protein S21 pseudogene 4 Neighboring gene maternal embryonic leucine zipper kinase Neighboring gene uncharacterized LOC105376030 Neighboring gene microRNA 4475

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

  • FLJ21343

Gene Ontology Provided by GOA

Function Evidence Code Pubs
metal ion binding IEA
Inferred from Electronic Annotation
more info
 
ubiquitin-protein transferase activity IDA
Inferred from Direct Assay
more info
PubMed 
Process Evidence Code Pubs
male gonad development IEA
Inferred from Electronic Annotation
more info
 
protein ubiquitination IDA
Inferred from Direct Assay
more info
PubMed 
protein ubiquitination IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
nucleoplasm IDA
Inferred from Direct Assay
more info
 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 
sperm flagellum IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
E3 ubiquitin-protein ligase RNF38
Names
RING-type E3 ubiquitin transferase RNF38
NP_073618.3
NP_919309.1
NP_919310.1
NP_919311.1
NP_919313.1
XP_005251423.1
XP_005251424.1
XP_006716784.1
XP_011516014.1
XP_011516015.1
XP_016869783.1
XP_016869785.1
XP_016869786.1

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_022781.5NP_073618.3  E3 ubiquitin-protein ligase RNF38 isoform 1

    See identical proteins and their annotated locations for NP_073618.3

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (1).
    Source sequence(s)
    AF394047, AL120640, AL136817, AL161792, BC033786
    Consensus CDS
    CCDS6603.1
    UniProtKB/Swiss-Prot
    Q9H0F5
    Related
    ENSP00000259605.6, ENST00000259605.11
    Conserved Domains (1) summary
    cd16472
    Location:460504
    RING-H2_RNF38_like; RING finger, H2 subclass, found in RING finger proteins RNF38, RNF44, and similar proteins
  2. NM_194328.2NP_919309.1  E3 ubiquitin-protein ligase RNF38 isoform 2

    See identical proteins and their annotated locations for NP_919309.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) has an alternate 5' terminal exon compared to variant 1. This difference causes translation initiation at a downstream AUG and an isoform (2) with a shorter N-terminus compared to isoform 1. Variants 2, 5 and 6 encode the same isoform.
    Source sequence(s)
    AF394047, AL161792, BG722531, BI459742
    UniProtKB/Swiss-Prot
    Q9H0F5
    Related
    ENSP00000349566.3, ENST00000357058.7
    Conserved Domains (1) summary
    cd16472
    Location:377421
    RING-H2_RNF38_like; RING finger, H2 subclass, found in RING finger proteins RNF38, RNF44, and similar proteins
  3. NM_194329.3NP_919310.1  E3 ubiquitin-protein ligase RNF38 isoform 3

    See identical proteins and their annotated locations for NP_919310.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) lacks an alternate in-frame exon, compared to variant 1, resulting in a shorter protein (isoform 3), compared to isoform 1.
    Source sequence(s)
    AF394047, AL120640, AL161792, BC033786
    Consensus CDS
    CCDS6604.1
    UniProtKB/Swiss-Prot
    Q9H0F5
    Related
    ENSP00000335239.5, ENST00000353739.8
    Conserved Domains (1) summary
    cd16472
    Location:410454
    RING-H2_RNF38_like; RING finger, H2 subclass, found in RING finger proteins RNF38, RNF44, and similar proteins
  4. NM_194330.2NP_919311.1  E3 ubiquitin-protein ligase RNF38 isoform 2

    See identical proteins and their annotated locations for NP_919311.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) has an alternate 5' terminal exon compared to variant 1. This difference causes translation initiation at a downstream AUG and an isoform (2) with a shorter N-terminus compared to isoform 1. Variants 2, 5 and 6 encode the same isoform.
    Source sequence(s)
    AF394047, AL161792, BC033786, BI520161, DA483270
    UniProtKB/Swiss-Prot
    Q9H0F5
    Related
    ENSP00000367117.2, ENST00000377885.6
    Conserved Domains (1) summary
    cd16472
    Location:377421
    RING-H2_RNF38_like; RING finger, H2 subclass, found in RING finger proteins RNF38, RNF44, and similar proteins
  5. NM_194332.2NP_919313.1  E3 ubiquitin-protein ligase RNF38 isoform 2

    See identical proteins and their annotated locations for NP_919313.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (6) has an alternate 5' terminal exon and lacks an exon compared to variant 1. These differences cause translation initiation at a downstream AUG and an isoform (2) with a shorter N-terminus compared to isoform 1. Variants 2, 5 and 6 encode the same isoform.
    Source sequence(s)
    AF394047, AL161792, BG722531, BI459742, DA189510
    UniProtKB/Swiss-Prot
    Q9H0F5
    Related
    ENSP00000343947.4, ENST00000350199.8
    Conserved Domains (1) summary
    cd16472
    Location:377421
    RING-H2_RNF38_like; RING finger, H2 subclass, found in RING finger proteins RNF38, RNF44, and similar proteins

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_000009.12 Reference GRCh38.p13 Primary Assembly

    Range
    36336398..36487384 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017014296.1XP_016869785.1  E3 ubiquitin-protein ligase RNF38 isoform X3

    Conserved Domains (1) summary
    pfam13639
    Location:350391
    zf-RING_2; Ring finger domain
  2. XM_017014297.1XP_016869786.1  E3 ubiquitin-protein ligase RNF38 isoform X3

    Conserved Domains (1) summary
    pfam13639
    Location:350391
    zf-RING_2; Ring finger domain
  3. XM_011517712.2XP_011516014.1  E3 ubiquitin-protein ligase RNF38 isoform X2

    See identical proteins and their annotated locations for XP_011516014.1

    UniProtKB/Swiss-Prot
    Q9H0F5
    Conserved Domains (1) summary
    cd16472
    Location:377421
    RING-H2_RNF38_like; RING finger, H2 subclass, found in RING finger proteins RNF38, RNF44, and similar proteins
  4. XM_017014294.1XP_016869783.1  E3 ubiquitin-protein ligase RNF38 isoform X1

  5. XM_006716721.3XP_006716784.1  E3 ubiquitin-protein ligase RNF38 isoform X2

    See identical proteins and their annotated locations for XP_006716784.1

    UniProtKB/Swiss-Prot
    Q9H0F5
    Conserved Domains (1) summary
    cd16472
    Location:377421
    RING-H2_RNF38_like; RING finger, H2 subclass, found in RING finger proteins RNF38, RNF44, and similar proteins
  6. XM_005251367.3XP_005251424.1  E3 ubiquitin-protein ligase RNF38 isoform X2

    See identical proteins and their annotated locations for XP_005251424.1

    UniProtKB/Swiss-Prot
    Q9H0F5
    Conserved Domains (1) summary
    cd16472
    Location:377421
    RING-H2_RNF38_like; RING finger, H2 subclass, found in RING finger proteins RNF38, RNF44, and similar proteins
  7. XM_005251366.3XP_005251423.1  E3 ubiquitin-protein ligase RNF38 isoform X2

    See identical proteins and their annotated locations for XP_005251423.1

    UniProtKB/Swiss-Prot
    Q9H0F5
    Conserved Domains (1) summary
    cd16472
    Location:377421
    RING-H2_RNF38_like; RING finger, H2 subclass, found in RING finger proteins RNF38, RNF44, and similar proteins
  8. XM_011517713.2XP_011516015.1  E3 ubiquitin-protein ligase RNF38 isoform X2

    See identical proteins and their annotated locations for XP_011516015.1

    UniProtKB/Swiss-Prot
    Q9H0F5
    Conserved Domains (1) summary
    cd16472
    Location:377421
    RING-H2_RNF38_like; RING finger, H2 subclass, found in RING finger proteins RNF38, RNF44, and similar proteins

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_194331.1: Suppressed sequence

    Description
    NM_194331.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.
Support Center