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Aliases for RBMY1D Gene

Aliases for RBMY1D Gene

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

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. Multiple copies of this gene are found in the AZFb azoospermia factor region of chromosome Y and the encoded protein is thought to be involved in spermatogenesis. Most copies of this locus are pseudogenes, although six highly similar copies have full-length ORFs and are considered functional. Four functional copies of this gene are found within inverted repeat IR2; two functional copies of this gene are found in palindrome P3, along with two copies of PTPN13-like, Y-linked. [provided by RefSeq, Jul 2008]

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 RNA binding and nucleotide binding. An important paralog of this gene is RBMXL1.

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

Start:
21,869,702 bp from pter
End:
21,894,552 bp from pter
Size:
24,851 bases
Orientation:
Minus strand

Genomic View for RBMY1D Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
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

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for RBMY1D Gene

Domains for RBMY1D Gene

Gene Families for RBMY1D Gene

HGNC:
  • RBM :RNA binding motif (RRM) containing

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 :
  • P0C7P1
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:0000166 nucleotide binding IEA --
GO:0003676 nucleic acid binding --
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

miRTarBase miRNAs that target RBMY1D

No data available for Enzyme Numbers (IUBMB) , Phenotypes , Animal Models , Transcription Factor Targeting 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

Gene Ontology (GO) - Cellular Components for RBMY1D Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
genes like me logo Genes that share ontologies with RBMY1D: view

Pathways for RBMY1D Gene

SuperPathways for RBMY1D Gene

No Data Available

Interacting Proteins for RBMY1D Gene

Gene Ontology (GO) - Biological Process for RBMY1D Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006397 mRNA processing IEA --
GO:0008380 RNA splicing IEA --
genes like me logo Genes that share ontologies with RBMY1D: view

No data available for Pathways by source for RBMY1D Gene

Transcripts for RBMY1D Gene

mRNA/cDNA for RBMY1D Gene

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

CRISPR Products

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for RBMY1D

Primer Products

  • OriGene qSTAR qPCR primer pairs in human,mouse,rat for RBMY1D
  • QuantiTect SYBR Green Assays in human,mouse,rat
  • Pre-validated RT² qPCR Primer Assay in human,mouse,rat
  • QuantiFast Probe-based Assays in human,mouse,rat

Flow Cytometry Products

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 (53.0).

Integrated Proteomics: protein expression 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 expressions with RBMY1D: view

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

Paralogs for RBMY1D Gene

Selected 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 MAF
rs36006454 -- 21,876,800(-) ATAGC(A/G)AAGGG intron-variant
rs112654477 -- 21,875,134(+) GGAGA(A/G)CCAGG intron-variant
rs200497994 -- 21,876,576(+) CTGAG(A/T)GACTG 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 for RBMY1D Gene

Disorders for RBMY1D Gene

MalaCards: The human disease database

MalaCards: The human disease database. (1) Diseases for RBMY1D Gene including...

Search for RBMY1D Gene in MalaCards »
genes like me logo Genes that share disorders with RBMY1D: view

No data available for UniProtKB/Swiss-Prot 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
  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. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 4
  4. A Y chromosome gene family with RNA-binding protein homology: candidates for the azoospermia factor AZF controlling human spermatogenesis. (PMID: 8269511) Ma K. … Jobling M. (Cell 1993) 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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