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TDRKH tudor and KH domain containing [ Homo sapiens (human) ]

Gene ID: 11022, updated on 6-Jan-2019

Summary

Official Symbol
TDRKHprovided by HGNC
Official Full Name
tudor and KH domain containingprovided by HGNC
Primary source
HGNC:HGNC:11713
See related
Ensembl:ENSG00000182134 MIM:609501
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
TDRD2
Expression
Broad expression in testis (RPKM 11.8), brain (RPKM 4.0) and 21 other tissues See more
Orthologs

Genomic context

See TDRKH in Genome Data Viewer
Location:
1q21.3
Exon count:
16
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 1 NC_000001.11 (151769433..151790534, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (151742741..151763052, complement)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene ribosomal protein S11 pseudogene 3 Neighboring gene mitochondrial ribosomal protein L9 Neighboring gene ornithine decarboxylase antizyme 3 Neighboring gene chloride nucleotide-sensitive channel 1A pseudogene Neighboring gene TDRKH antisense RNA 1 Neighboring gene leucine rich repeat and Ig domain containing 4

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?

Pathways from BioSystems

  • Gene Expression, organism-specific biosystem (from REACTOME)
    Gene Expression, organism-specific biosystemGene Expression covers the pathways by which genomic DNA is transcribed to yield RNA, the regulation of these transcription processes, and the pathways by which newly-made RNA Transcripts are process...
  • Gene Silencing by RNA, organism-specific biosystem (from REACTOME)
    Gene Silencing by RNA, organism-specific biosystemIn this module, the biology of various types of regulatory non-coding RNAs are described. Currently, biogenesis and functions of small interfering RNAs (siRNAs) and microRNAs are annotated.
  • PIWI-interacting RNA (piRNA) biogenesis, organism-specific biosystem (from REACTOME)
    PIWI-interacting RNA (piRNA) biogenesis, organism-specific biosystemIn germ cells of humans and mice, precursors of PIWI-interacting RNAs (piRNAs) are transcribed from a few hundred sequence clusters, as well as individual transposons, intergenic regions, and genes i...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
RNA binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
DNA methylation involved in gamete generation ISS
Inferred from Sequence or Structural Similarity
more info
 
cell differentiation IEA
Inferred from Electronic Annotation
more info
 
fertilization ISS
Inferred from Sequence or Structural Similarity
more info
 
gene silencing by RNA IEA
Inferred from Electronic Annotation
more info
 
male meiotic nuclear division ISS
Inferred from Sequence or Structural Similarity
more info
 
piRNA metabolic process ISS
Inferred from Sequence or Structural Similarity
more info
 
spermatogenesis ISS
Inferred from Sequence or Structural Similarity
more info
 
Component Evidence Code Pubs
mitochondrion ISS
Inferred from Sequence or Structural Similarity
more info
 
pi-body ISS
Inferred from Sequence or Structural Similarity
more info
 
piP-body ISS
Inferred from Sequence or Structural Similarity
more info
 

General protein information

Preferred Names
tudor and KH domain-containing protein
Names
putative RNA binding protein
tudor domain containing 2
tudor domain-containing protein 2

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_001083963.1NP_001077432.1  tudor and KH domain-containing protein isoform a

    See identical proteins and their annotated locations for NP_001077432.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1, 2, and 3 all encode isoform a.
    Source sequence(s)
    AK226092, BC022467, DA796638
    Consensus CDS
    CCDS41394.1
    UniProtKB/Swiss-Prot
    Q9Y2W6
    Related
    ENSP00000395718.2, ENST00000458431.6
    Conserved Domains (4) summary
    cd04508
    Location:357404
    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 ...
    cd00105
    Location:54116
    KH-I; K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that ...
    pfam00567
    Location:303422
    TUDOR; Tudor domain
    pfam10573
    Location:192249
    UPF0561; uncharacterized protein family UPF0561
  2. NM_001083964.1NP_001077433.1  tudor and KH domain-containing protein isoform b

    See identical proteins and their annotated locations for NP_001077433.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) lacks an alternate inframe segment in the coding region compared to variant 1. The resulting isoform (b) has the same N- and C-termini but is shorter compared to isoform a.
    Source sequence(s)
    AK226092, BC022467, DA796638
    Consensus CDS
    CCDS41395.1
    UniProtKB/Swiss-Prot
    Q9Y2W6
    Related
    ENSP00000357817.3, ENST00000368825.7
    Conserved Domains (4) summary
    cd04508
    Location:312359
    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 ...
    pfam00013
    Location:54112
    KH_1; KH domain
    pfam00567
    Location:258377
    TUDOR; Tudor domain
    pfam10573
    Location:147204
    UPF0561; uncharacterized protein family UPF0561
  3. NM_001083965.2NP_001077434.1  tudor and KH domain-containing protein isoform a

    See identical proteins and their annotated locations for NP_001077434.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (a). Variants 1, 2, and 3 all encode isoform a.
    Source sequence(s)
    AF227192, AK226092, AL589765, BC022467, DA796638
    Consensus CDS
    CCDS41394.1
    UniProtKB/Swiss-Prot
    Q9Y2W6
    Related
    ENSP00000357815.3, ENST00000368824.7
    Conserved Domains (4) summary
    cd04508
    Location:357404
    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 ...
    cd00105
    Location:54116
    KH-I; K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that ...
    pfam00567
    Location:303422
    TUDOR; Tudor domain
    pfam10573
    Location:192249
    UPF0561; uncharacterized protein family UPF0561
  4. NM_006862.3NP_006853.2  tudor and KH domain-containing protein isoform a

    See identical proteins and their annotated locations for NP_006853.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) differs in the 3' UTR compared to variant 1. Variants 1, 2, and 3 all encode isoform a.
    Source sequence(s)
    AF119121, AL589765, BC032690, DA796638
    Consensus CDS
    CCDS41394.1
    UniProtKB/Swiss-Prot
    Q9Y2W6
    Related
    ENSP00000357819.6, ENST00000368827.10
    Conserved Domains (4) summary
    cd04508
    Location:357404
    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 ...
    cd00105
    Location:54116
    KH-I; K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that ...
    pfam00567
    Location:303422
    TUDOR; Tudor domain
    pfam10573
    Location:192249
    UPF0561; uncharacterized protein family UPF0561

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.p12 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p12 Primary Assembly

    Range
    151769433..151790534 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017000123.2XP_016855612.1  tudor and KH domain-containing protein isoform X1

    UniProtKB/Swiss-Prot
    Q9Y2W6
    Conserved Domains (4) summary
    cd04508
    Location:357404
    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 ...
    cd00105
    Location:54116
    KH-I; K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that ...
    pfam00567
    Location:303422
    TUDOR; Tudor domain
    pfam10573
    Location:192249
    UPF0561; uncharacterized protein family UPF0561
  2. XM_017000127.1XP_016855616.1  tudor and KH domain-containing protein isoform X1

    UniProtKB/Swiss-Prot
    Q9Y2W6
    Conserved Domains (4) summary
    cd04508
    Location:357404
    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 ...
    cd00105
    Location:54116
    KH-I; K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that ...
    pfam00567
    Location:303422
    TUDOR; Tudor domain
    pfam10573
    Location:192249
    UPF0561; uncharacterized protein family UPF0561
  3. XM_017000126.1XP_016855615.1  tudor and KH domain-containing protein isoform X1

    UniProtKB/Swiss-Prot
    Q9Y2W6
    Conserved Domains (4) summary
    cd04508
    Location:357404
    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 ...
    cd00105
    Location:54116
    KH-I; K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that ...
    pfam00567
    Location:303422
    TUDOR; Tudor domain
    pfam10573
    Location:192249
    UPF0561; uncharacterized protein family UPF0561
  4. XM_017000130.2XP_016855619.1  tudor and KH domain-containing protein isoform X2

    UniProtKB/TrEMBL
    B4DJ68
    Conserved Domains (2) summary
    cd04508
    Location:133180
    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:79198
    TUDOR; Tudor domain
  5. XM_017000128.1XP_016855617.1  tudor and KH domain-containing protein isoform X2

    UniProtKB/TrEMBL
    B4DJ68
    Conserved Domains (2) summary
    cd04508
    Location:133180
    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:79198
    TUDOR; Tudor domain
  6. XM_017000122.2XP_016855611.1  tudor and KH domain-containing protein isoform X1

    UniProtKB/Swiss-Prot
    Q9Y2W6
    Conserved Domains (4) summary
    cd04508
    Location:357404
    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 ...
    cd00105
    Location:54116
    KH-I; K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that ...
    pfam00567
    Location:303422
    TUDOR; Tudor domain
    pfam10573
    Location:192249
    UPF0561; uncharacterized protein family UPF0561
  7. XM_017000125.1XP_016855614.1  tudor and KH domain-containing protein isoform X1

    UniProtKB/Swiss-Prot
    Q9Y2W6
    Conserved Domains (4) summary
    cd04508
    Location:357404
    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 ...
    cd00105
    Location:54116
    KH-I; K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that ...
    pfam00567
    Location:303422
    TUDOR; Tudor domain
    pfam10573
    Location:192249
    UPF0561; uncharacterized protein family UPF0561
  8. XM_017000124.1XP_016855613.1  tudor and KH domain-containing protein isoform X1

    UniProtKB/Swiss-Prot
    Q9Y2W6
    Related
    ENSP00000357812.1, ENST00000368822.5
    Conserved Domains (4) summary
    cd04508
    Location:357404
    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 ...
    cd00105
    Location:54116
    KH-I; K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that ...
    pfam00567
    Location:303422
    TUDOR; Tudor domain
    pfam10573
    Location:192249
    UPF0561; uncharacterized protein family UPF0561
  9. XM_017000129.2XP_016855618.1  tudor and KH domain-containing protein isoform X2

    UniProtKB/TrEMBL
    B4DJ68
    Conserved Domains (2) summary
    cd04508
    Location:133180
    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:79198
    TUDOR; Tudor domain
  10. XM_005244856.4XP_005244913.1  tudor and KH domain-containing protein isoform X2

    See identical proteins and their annotated locations for XP_005244913.1

    UniProtKB/TrEMBL
    B4DJ68
    Conserved Domains (2) summary
    cd04508
    Location:133180
    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:79198
    TUDOR; Tudor domain
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