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Aliases for RBMY1D Gene

Aliases for RBMY1D Gene

  • RNA Binding Motif Protein, Y-Linked, Family 1, Member D 2 3 5

External Ids for RBMY1D Gene

Previous GeneCards Identifiers for RBMY1D Gene

  • GC0YU900271
  • GC0YM022435
  • GC0YM024026

Summaries for RBMY1D Gene

Entrez Gene Summary for RBMY1D Gene

  • This gene encodes a protein containing an RNA-binding motif in the N-terminus and four SRGY (serine, arginine, glycine, tyrosine) boxes in the C-terminus. This protein likely functions as a splicing factor during spermatogenesis. Multiple closely related paralogs of this gene are found in a gene cluster in the AZFb azoospermia factor region of chromosome Y. Most of these related copies are thought to be pseudogenes, though several likely encode functional proteins. [provided by RefSeq, Mar 2016]

GeneCards Summary for RBMY1D Gene

RBMY1D (RNA Binding Motif Protein, Y-Linked, Family 1, Member D) is a Protein Coding gene. Diseases associated with RBMY1D include azoospermia. GO annotations related to this gene include nucleic acid binding and nucleotide binding. An important paralog of this gene is CIRBP.

UniProtKB/Swiss-Prot for RBMY1D Gene

  • RNA-binding protein which may be involved in spermatogenesis. Required for sperm development, possibly by participating in pre-mRNA splicing in the testis.

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for RBMY1D Gene

Genomics for RBMY1D Gene

Regulatory Elements for RBMY1D Gene

Genomic Location for RBMY1D Gene

Chromosome:
Y
Start:
21,868,388 bp from pter
End:
21,900,745 bp from pter
Size:
32,358 bases
Orientation:
Minus strand

Genomic View for RBMY1D Gene

Genes around RBMY1D on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RBMY1D Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for RBMY1D Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RBMY1D Gene

Proteins for RBMY1D Gene

  • Protein details for RBMY1D Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P0C7P1-RBY1D_HUMAN
    Recommended name:
    RNA-binding motif protein, Y chromosome, family 1 member D
    Protein Accession:
    P0C7P1
    Secondary Accessions:
    • B7ZMD9

    Protein attributes for RBMY1D Gene

    Size:
    496 amino acids
    Molecular mass:
    55775 Da
    Quaternary structure:
    • Interacts with splicing factor proteins SFRS3/SRP20, TRA2B/SFRS10, KHDRBS1/SAM68 and KHDRBS3.
    Miscellaneous:
    • The RBMY1 proteins are encoded by repeated regions of the Y chromosome, mostly within the AZFb region. The exact number of functional copies is unclear and may vary between individuals, and some of them may represent pseudogenes. The proteins are very similar, which makes the characterization of each protein difficult. Thus, most experiments do not discriminate between the different members. One can therefore suppose that reported interactions with a RBMY1 protein involve all the proteins.

    Alternative splice isoforms for RBMY1D Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for RBMY1D Gene

Proteomics data for RBMY1D Gene at MOPED

Post-translational modifications for RBMY1D Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for RBMY1D Gene

No data available for DME Specific Peptides for RBMY1D Gene

Domains & Families for RBMY1D Gene

Gene Families for RBMY1D Gene

Protein Domains for RBMY1D Gene

Suggested Antigen Peptide Sequences for RBMY1D Gene

Graphical View of Domain Structure for InterPro Entry

P0C7P1

UniProtKB/Swiss-Prot:

RBY1D_HUMAN :
  • Contains 1 RRM (RNA recognition motif) domain.
Domain:
  • Contains 1 RRM (RNA recognition motif) domain.
genes like me logo Genes that share domains with RBMY1D: view

Function for RBMY1D Gene

Molecular function for RBMY1D Gene

UniProtKB/Swiss-Prot Function:
RNA-binding protein which may be involved in spermatogenesis. Required for sperm development, possibly by participating in pre-mRNA splicing in the testis.

Gene Ontology (GO) - Molecular Function for RBMY1D Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding IEA --
genes like me logo Genes that share ontologies with RBMY1D: view

Animal Model Products

CRISPR Products

miRNA for RBMY1D Gene

No data available for Enzyme Numbers (IUBMB) , Phenotypes , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for RBMY1D Gene

Localization for RBMY1D Gene

Subcellular locations from UniProtKB/Swiss-Prot for RBMY1D Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for RBMY1D Gene COMPARTMENTS Subcellular localization image for RBMY1D gene
Compartment Confidence
nucleus 5

No data available for Gene Ontology (GO) - Cellular Components for RBMY1D Gene

Pathways & Interactions for RBMY1D Gene

SuperPathways for RBMY1D Gene

No Data Available

Interacting Proteins for RBMY1D Gene

Gene Ontology (GO) - Biological Process for RBMY1D Gene

None

No data available for Pathways by source and SIGNOR curated interactions for RBMY1D Gene

Drugs & Compounds for RBMY1D Gene

No Compound Related Data Available

Transcripts for RBMY1D Gene

mRNA/cDNA for RBMY1D Gene

(11) REFSEQ mRNAs :
(3) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Alternative Splicing Database (ASD) splice patterns (SP) for RBMY1D Gene

No ASD Table

Relevant External Links for RBMY1D Gene

GeneLoc Exon Structure for
RBMY1D
ECgene alternative splicing isoforms for
RBMY1D

Expression for RBMY1D Gene

mRNA expression in normal human tissues for RBMY1D Gene

mRNA differential expression in normal tissues according to GTEx for RBMY1D Gene

This gene is overexpressed in Testis (x53.0).

Protein differential expression in normal tissues from HIPED for RBMY1D Gene

This gene is overexpressed in Serum (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for RBMY1D Gene



mRNA Expression by UniProt/SwissProt for RBMY1D Gene

P0C7P1-RBY1D_HUMAN
Tissue specificity: Testis-specific.
genes like me logo Genes that share expression patterns with RBMY1D: view

Protein tissue co-expression partners for RBMY1D Gene

- Elite partner

Primer Products

In Situ Assay Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery for RBMY1D Gene

Orthologs for RBMY1D Gene

This gene was present in the common ancestor of animals.

Orthologs for RBMY1D Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia -- 36
  • 94 (a)
ManyToMany
-- 36
  • 94 (a)
ManyToMany
-- 36
  • 94 (a)
ManyToMany
-- 36
  • 95 (a)
ManyToMany
-- 36
  • 94 (a)
ManyToMany
-- 36
  • 94 (a)
ManyToMany
LOC736145 35
  • 97.04 (n)
  • 93.75 (a)
cow
(Bos Taurus)
Mammalia RBMX 36
  • 61 (a)
ManyToMany
dog
(Canis familiaris)
Mammalia -- 36
  • 32 (a)
ManyToMany
mouse
(Mus musculus)
Mammalia Gm10256 36
  • 41 (a)
ManyToMany
Gm10352 36
  • 41 (a)
ManyToMany
Gm21677 36
  • 41 (a)
ManyToMany
Gm21693 36
  • 41 (a)
ManyToMany
Gm21704 36
  • 41 (a)
ManyToMany
Gm21708 36
  • 41 (a)
ManyToMany
Gm3376 36
  • 42 (a)
ManyToMany
Rbmy 36
  • 41 (a)
ManyToMany
oppossum
(Monodelphis domestica)
Mammalia -- 36
  • 61 (a)
OneToMany
platypus
(Ornithorhynchus anatinus)
Mammalia -- 36
  • 59 (a)
OneToMany
chicken
(Gallus gallus)
Aves RBMX 36
  • 61 (a)
OneToMany
lizard
(Anolis carolinensis)
Reptilia -- 36
  • 57 (a)
OneToMany
zebrafish
(Danio rerio)
Actinopterygii rbmx 36
  • 51 (a)
OneToMany
fruit fly
(Drosophila melanogaster)
Insecta tra2 36
  • 15 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea rsp-8 36
  • 18 (a)
OneToMany
Species with no ortholog for RBMY1D:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)

Evolution for RBMY1D Gene

ENSEMBL:
Gene Tree for RBMY1D (if available)
TreeFam:
Gene Tree for RBMY1D (if available)

Paralogs for RBMY1D Gene

(17) SIMAP similar genes for RBMY1D Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with RBMY1D: view

Variants for RBMY1D Gene

Sequence variations from dbSNP and Humsavar for RBMY1D Gene

SNP ID Clin Chr 0Y pos Sequence Context AA Info Type
rs36006454 -- 21,876,800(-) ATAGC(A/G)AAGGG intron-variant
rs78854305 -- 21,899,857(+) GACAC(A/G)GCTCT intron-variant
rs746969923 -- 21,900,686(+) AGATA(C/T)GAAAT intron-variant
rs200497994 -- 21,876,576(+) CTGAG(A/T)GACTG intron-variant
rs112654477 -- 21,875,134(+) GGAGA(A/G)CCAGG intron-variant

Structural Variations from Database of Genomic Variants (DGV) for RBMY1D Gene

Variant ID Type Subtype PubMed ID
dgv2501e1 CNV Complex 17122850
dgv2502e1 CNV Complex 17122850
dgv2503e1 CNV Complex 17122850
essv23856 CNV CNV 17122850
nsv469635 CNV Loss 16826518
nsv471611 CNV Gain+Loss 15918152
nsv10026 CNV Gain 18304495
nsv819669 CNV Insertion 19587683
nsv469695 CNV Complex 16826518

Relevant External Links for RBMY1D Gene

HapMap Linkage Disequilibrium report
RBMY1D

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for RBMY1D Gene

Disorders for RBMY1D Gene

MalaCards: The human disease database

(1) MalaCards diseases for RBMY1D Gene - From: GeneCards

Disorder Aliases PubMed IDs
azoospermia
  • spermatogenic failure
- elite association - COSMIC cancer census association via MalaCards

Relevant External Links for RBMY1D

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
RBMY1D
genes like me logo Genes that share disorders with RBMY1D: view

No data available for UniProtKB/Swiss-Prot and Genatlas for RBMY1D Gene

Publications for RBMY1D Gene

  1. The male-specific region of the human Y chromosome is a mosaic of discrete sequence classes. (PMID: 12815422) Skaletsky H. … Page D.C. (Nature 2003) 2 3 4 67
  2. RBMY, a male germ cell-specific RNA-binding protein, activated in human liver cancers and transforms rodent fibroblasts. (PMID: 15184870) Tsuei D.J. … Chang M.H. (Oncogene 2004) 3
  3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PMID: 12477932) Strausberg R.L. … Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002) 3
  4. Structure and organization of the RBMY genes on the human Y chromosome: transposition and amplification of an ancestral autosomal hnRNPG gene. (PMID: 9598316) Chai N.-N. … Yen P.H. (Genomics 1998) 3
  5. Degeneracy in human multicopy RBM (YRRM), a candidate spermatogenesis gene. (PMID: 8875892) Prosser J. … Cooke H.J. (Mamm. Genome 1996) 3

Products for RBMY1D Gene

Sources for RBMY1D Gene

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