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RNF17 ring finger protein 17 [ Homo sapiens (human) ]

Gene ID: 56163, updated on 7-Apr-2024

Summary

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Official Symbol
RNF17provided by HGNC
Official Full Name
ring finger protein 17provided by HGNC
Primary source
HGNC:HGNC:10060
See related
Ensembl:ENSG00000132972 MIM:605793; AllianceGenome:HGNC:10060
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
TDRD4; Mmip-2; SPATA23
Summary
This gene is similar to a mouse gene that encodes a testis-specific protein containing a RING finger domain. Alternatively spliced transcript variants encoding different isoforms have been found. [provided by RefSeq, May 2010]
Expression
Restricted expression toward testis (RPKM 10.4) See more
Orthologs
mouse all
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Genomic context

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Location:
13q12.12
Exon count:
44
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 13 NC_000013.11 (24747767..24888581)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 13 NC_060937.1 (23955491..24097408)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 13 NC_000013.10 (25338307..25454059)

Chromosome 13 - NC_000013.11Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7479 Neighboring gene ankyrin repeat domain 20 family member A10, pseudogene Neighboring gene clustered mitochondria homolog pseudogene 9 Neighboring gene iroquois homeobox 1 pseudogene 1 Neighboring gene Sharpr-MPRA regulatory region 11275 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5181 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr13:25467896-25468814 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7480 Neighboring gene centromere protein J Neighboring gene MED14-independent group 3 enhancer GRCh37_chr13:25484884-25486083 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr13:25496143-25497044 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr13:25497045-25497946 Neighboring gene TPTE2 pseudogene 1 Neighboring gene solute carrier family 25 member 15 pseudogene 3 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr13:25531195-25531774 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr13:25543733-25544640 Neighboring gene ribosomal protein L34 pseudogene 27

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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

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Related articles in PubMed

  1. Tudor domain-containing protein 4 as a potential cancer/testis antigen in liver cancer. Yoon H, et al. Tohoku J Exp Med, 2011 May. PMID 21515969
  2. Expression analysis of two cancer-testis genes, FBXO39 and TDRD4, in breast cancer tissues and cell lines. Seifi-Alan M, et al. Asian Pac J Cancer Prev, 2014 Jan. PMID 24377578
  3. An E2-guided E3 Screen Identifies the RNF17-UBE2U Pair as Regulator of the Radiosensitivity, Immunodeficiency, Dysmorphic Features, and Learning Difficulties (RIDDLE) Syndrome Protein RNF168. Guo Y, et al. J Biol Chem, 2017 Jan 20. PMID 27903633, Free PMC Article
  4. Androgen-receptor-interacting nuclear proteins. Jänne OA, et al. Biochem Soc Trans, 2000. PMID 10961928
  5. An abundance of X-linked genes expressed in spermatogonia. Wang PJ, et al. Nat Genet, 2001 Apr. PMID 11279525

See all (11) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Further mining of the UBE2U interactome uncovered its cognate E3 RNF17 as a novel factor that, via the radiosensitivity, immunodeficiency, dysmorphic features, and learning difficulties (RIDDLE) syndrome protein RNF168, enforces DNA damage responses.
    Title: An E2-guided E3 Screen Identifies the RNF17-UBE2U Pair as Regulator of the Radiosensitivity, Immunodeficiency, Dysmorphic Features, and Learning Difficulties (RIDDLE) Syndrome Protein RNF168.
  2. TDRD4 showed significant up-regulation in invasive ductal breast carcinoma.
    Title: Expression analysis of two cancer-testis genes, FBXO39 and TDRD4, in breast cancer tissues and cell lines.
  3. TDRD4 mRNA is expressed in a subset of liver cancers, and TDRD4 is a candidate CT antigen for liver cancer.
    Title: Tudor domain-containing protein 4 as a potential cancer/testis antigen in liver cancer.
Submit: New GeneRIF Correction

Phenotypes

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Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • FLJ11045

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables identical protein binding IEA
Inferred from Electronic Annotation
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in spermatid development IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
RING finger protein 17
Names
spermatogenesis associated 23
tudor domain containing 4
tudor domain-containing protein 4

NCBI Reference Sequences (RefSeq)

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NEW Try the new Transcript table

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_001184993.2 → NP_001171922.1  RING finger protein 17 isoform 2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks an in-frame segment in the CDS, as compared to variant 1. The resulting isoform (2) lacks an internal segment, as compared to isoform 1.
    Source sequence(s)
    AK302435, BC037275
    UniProtKB/TrEMBL
    B7Z7S1
    Conserved Domains (2) summary
    cd04508
    Location:731 → 776
    TUDOR; Tudor domains are found in many eukaryotic organisms and have been implicated in protein-protein interactions in which methylated protein substrates bind to these domains. For example, the Tudor domain of Survival of Motor Neuron (SMN) binds to ...
    pfam00567
    Location:1173 → 1291
    TUDOR; Tudor domain

  2. NM_031277.3 → NP_112567.2  RING finger protein 17 isoform 1

    See identical proteins and their annotated locations for NP_112567.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (1).
    Source sequence(s)
    AK001907, BC037275, CD358307, DB517763
    Consensus CDS
    CCDS9308.2
    UniProtKB/Swiss-Prot
    Q5T2J9, Q6P1W3, Q9BXT7, Q9BXT8, Q9NUY9
    UniProtKB/TrEMBL
    B7Z7S1
    Related
    ENSP00000255324.5, ENST00000255324.10
    Conserved Domains (2) summary
    cd04508
    Location:731 → 776
    TUDOR; Tudor domains are found in many eukaryotic organisms and have been implicated in protein-protein interactions in which methylated protein substrates bind to these domains. For example, the Tudor domain of Survival of Motor Neuron (SMN) binds to ...
    pfam00567
    Location:1177 → 1295
    TUDOR; Tudor domain

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000013.11 Reference GRCh38.p14 Primary Assembly

    Range
    24747767..24888581
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011535156.3 → XP_011533458.1  RING finger protein 17 isoform X1

    See identical proteins and their annotated locations for XP_011533458.1

    UniProtKB/TrEMBL
    B7Z7S1
    Conserved Domains (2) summary
    cd04508
    Location:1560 → 1607
    TUDOR; Tudor domains are found in many eukaryotic organisms and have been implicated in protein-protein interactions in which methylated protein substrates bind to these domains. For example, the Tudor domain of Survival of Motor Neuron (SMN) binds to ...
    pfam00567
    Location:1253 → 1371
    TUDOR; Tudor domain

  2. XM_011535152.3 → XP_011533454.1  RING finger protein 17 isoform X1

    See identical proteins and their annotated locations for XP_011533454.1

    UniProtKB/TrEMBL
    B7Z7S1
    Conserved Domains (2) summary
    cd04508
    Location:1560 → 1607
    TUDOR; Tudor domains are found in many eukaryotic organisms and have been implicated in protein-protein interactions in which methylated protein substrates bind to these domains. For example, the Tudor domain of Survival of Motor Neuron (SMN) binds to ...
    pfam00567
    Location:1253 → 1371
    TUDOR; Tudor domain

  3. XM_011535158.3 → XP_011533460.1  RING finger protein 17 isoform X5

    UniProtKB/TrEMBL
    B7Z7S1
    Conserved Domains (2) summary
    cd04508
    Location:1518 → 1565
    TUDOR; Tudor domains are found in many eukaryotic organisms and have been implicated in protein-protein interactions in which methylated protein substrates bind to these domains. For example, the Tudor domain of Survival of Motor Neuron (SMN) binds to ...
    pfam00567
    Location:1253 → 1371
    TUDOR; Tudor domain

  4. XM_011535157.3 → XP_011533459.1  RING finger protein 17 isoform X2

    UniProtKB/TrEMBL
    B7Z7S1
    Conserved Domains (2) summary
    cd04508
    Location:1556 → 1603
    TUDOR; Tudor domains are found in many eukaryotic organisms and have been implicated in protein-protein interactions in which methylated protein substrates bind to these domains. For example, the Tudor domain of Survival of Motor Neuron (SMN) binds to ...
    pfam00567
    Location:1249 → 1367
    TUDOR; Tudor domain

  5. XM_011535159.3 → XP_011533461.1  RING finger protein 17 isoform X6

    UniProtKB/TrEMBL
    B7Z7S1
    Conserved Domains (2) summary
    cd04508
    Location:758 → 803
    TUDOR; Tudor domains are found in many eukaryotic organisms and have been implicated in protein-protein interactions in which methylated protein substrates bind to these domains. For example, the Tudor domain of Survival of Motor Neuron (SMN) binds to ...
    pfam00567
    Location:1204 → 1322
    TUDOR; Tudor domain

  6. XM_011535160.3 → XP_011533462.1  RING finger protein 17 isoform X7

    UniProtKB/TrEMBL
    B7Z7S1
    Conserved Domains (2) summary
    cd04508
    Location:758 → 803
    TUDOR; Tudor domains are found in many eukaryotic organisms and have been implicated in protein-protein interactions in which methylated protein substrates bind to these domains. For example, the Tudor domain of Survival of Motor Neuron (SMN) binds to ...
    pfam00567
    Location:1200 → 1318
    TUDOR; Tudor domain

  7. XM_011535155.3 → XP_011533457.1  RING finger protein 17 isoform X1

    See identical proteins and their annotated locations for XP_011533457.1

    UniProtKB/TrEMBL
    B7Z7S1
    Conserved Domains (2) summary
    cd04508
    Location:1560 → 1607
    TUDOR; Tudor domains are found in many eukaryotic organisms and have been implicated in protein-protein interactions in which methylated protein substrates bind to these domains. For example, the Tudor domain of Survival of Motor Neuron (SMN) binds to ...
    pfam00567
    Location:1253 → 1371
    TUDOR; Tudor domain

  8. XM_047430486.1 → XP_047286442.1  RING finger protein 17 isoform X1

  9. XM_006719846.4 → XP_006719909.1  RING finger protein 17 isoform X3

    UniProtKB/TrEMBL
    B7Z7S1
    Conserved Domains (2) summary
    cd04508
    Location:1553 → 1600
    TUDOR; Tudor domains are found in many eukaryotic organisms and have been implicated in protein-protein interactions in which methylated protein substrates bind to these domains. For example, the Tudor domain of Survival of Motor Neuron (SMN) binds to ...
    pfam00567
    Location:1246 → 1364
    TUDOR; Tudor domain

  10. XM_006719849.3 → XP_006719912.1  RING finger protein 17 isoform X4

    UniProtKB/TrEMBL
    B7Z7S1
    Conserved Domains (2) summary
    cd04508
    Location:1533 → 1580
    TUDOR; Tudor domains are found in many eukaryotic organisms and have been implicated in protein-protein interactions in which methylated protein substrates bind to these domains. For example, the Tudor domain of Survival of Motor Neuron (SMN) binds to ...
    pfam00567
    Location:1226 → 1344
    TUDOR; Tudor domain

  11. XM_017020676.2 → XP_016876165.1  RING finger protein 17 isoform X8

    UniProtKB/TrEMBL
    B7Z7S1

  12. XM_047430488.1 → XP_047286444.1  RING finger protein 17 isoform X9

  13. XM_011535162.2 → XP_011533464.1  RING finger protein 17 isoform X10

    UniProtKB/TrEMBL
    B7Z7S1
    Conserved Domains (2) summary
    cd04508
    Location:1359 → 1406
    TUDOR; Tudor domains are found in many eukaryotic organisms and have been implicated in protein-protein interactions in which methylated protein substrates bind to these domains. For example, the Tudor domain of Survival of Motor Neuron (SMN) binds to ...
    pfam00567
    Location:1052 → 1170
    TUDOR; Tudor domain

  14. XM_011535163.2 → XP_011533465.1  RING finger protein 17 isoform X11

    Conserved Domains (2) summary
    cd04508
    Location:1122 → 1169
    TUDOR; Tudor domains are found in many eukaryotic organisms and have been implicated in protein-protein interactions in which methylated protein substrates bind to these domains. For example, the Tudor domain of Survival of Motor Neuron (SMN) binds to ...
    pfam00567
    Location:815 → 933
    TUDOR; Tudor domain

  15. XM_011535164.3 → XP_011533466.1  RING finger protein 17 isoform X12

    UniProtKB/TrEMBL
    Q5T2J8
    Related
    ENSP00000388892.1, ENST00000418120.5
    Conserved Domains (2) summary
    cd04508
    Location:750 → 797
    TUDOR; Tudor domains are found in many eukaryotic organisms and have been implicated in protein-protein interactions in which methylated protein substrates bind to these domains. For example, the Tudor domain of Survival of Motor Neuron (SMN) binds to ...
    pfam00567
    Location:443 → 561
    TUDOR; Tudor domain

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060937.1 Alternate T2T-CHM13v2.0

    Range
    23955491..24097408
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054374757.1 → XP_054230732.1  RING finger protein 17 isoform X1

  2. XM_054374759.1 → XP_054230734.1  RING finger protein 17 isoform X1

  3. XM_054374758.1 → XP_054230733.1  RING finger protein 17 isoform X1

  4. XM_054374763.1 → XP_054230738.1  RING finger protein 17 isoform X5

  5. XM_054374760.1 → XP_054230735.1  RING finger protein 17 isoform X2

  6. XM_054374765.1 → XP_054230740.1  RING finger protein 17 isoform X7

  7. XM_054374764.1 → XP_054230739.1  RING finger protein 17 isoform X6

  8. XM_054374761.1 → XP_054230736.1  RING finger protein 17 isoform X3

  9. XM_054374762.1 → XP_054230737.1  RING finger protein 17 isoform X4

  10. XM_054374766.1 → XP_054230741.1  RING finger protein 17 isoform X8

  11. XM_054374767.1 → XP_054230742.1  RING finger protein 17 isoform X9

  12. XM_054374768.1 → XP_054230743.1  RING finger protein 17 isoform X10

  13. XM_054374769.1 → XP_054230744.1  RING finger protein 17 isoform X11

  14. XM_054374770.1 → XP_054230745.1  RING finger protein 17 isoform X12

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_031994.1: Suppressed sequence

    Description
    NM_031994.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9BXT8.3 GenPept UniProtKB/Swiss-Prot:Q9BXT8

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