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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 and Male Reproductive System Disease. Gene Ontology (GO) annotations related to this gene include nucleic acid binding and nucleotide binding. An important paralog of this gene is RBMY1A1.

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.

Additional gene information for RBMY1D Gene

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

Genomics for RBMY1D Gene

GeneHancer (GH) Regulatory Elements for RBMY1D Gene

Promoters and enhancers for RBMY1D Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH0YI021894 Promoter 0.5 EPDnew 550.4 +6.2 6221 0.1 ENSG00000251618 RBMY1D ENSG00000229725
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around RBMY1D on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the RBMY1D gene promoter:

Genomic Locations for RBMY1D Gene

Genomic Locations for RBMY1D Gene
32,358 bases
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:
    Recommended name:
    RNA-binding motif protein, Y chromosome, family 1 member D
    Protein Accession:
    Secondary Accessions:
    • B7ZMD9

    Protein attributes for RBMY1D Gene

    496 amino acids
    Molecular mass:
    55775 Da
    Quaternary structure:
    • Interacts with splicing factor proteins SFRS3/SRP20, TRA2B/SFRS10, KHDRBS1/SAM68 and KHDRBS3.
    • 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


neXtProt entry for RBMY1D Gene

Post-translational modifications for RBMY1D Gene

No Post-translational modifications

No data available for DME Specific Peptides for RBMY1D Gene

Domains & Families for RBMY1D Gene

Gene Families for RBMY1D Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for RBMY1D Gene

Suggested Antigen Peptide Sequences for RBMY1D Gene

Graphical View of Domain Structure for InterPro Entry

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

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

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

miRNA for RBMY1D Gene

Clone Products

No data available for Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , 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

Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
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

No data available for Subcellular locations from the Human Protein Atlas (HPA) 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

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 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

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

Clone Products

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

No ASD Table

Relevant External Links for RBMY1D Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for RBMY1D Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE 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

Protein tissue co-expression partners for RBMY1D Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of RBMY1D Gene:


mRNA Expression by UniProt/SwissProt for RBMY1D Gene:

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

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer 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
(Pan troglodytes)
Mammalia LOC736145 33
  • 97.04 (n)
-- 34
  • 95 (a)
-- 34
  • 94 (a)
-- 34
  • 94 (a)
-- 34
  • 94 (a)
-- 34
  • 94 (a)
-- 34
  • 94 (a)
(Bos Taurus)
Mammalia RBMX 34
  • 61 (a)
(Monodelphis domestica)
Mammalia -- 34
  • 61 (a)
(Ornithorhynchus anatinus)
Mammalia -- 34
  • 59 (a)
(Mus musculus)
Mammalia Gm3376 34
  • 42 (a)
Gm10256 34
  • 41 (a)
Gm10352 34
  • 41 (a)
Gm21677 34
  • 41 (a)
Gm21693 34
  • 41 (a)
Gm21704 34
  • 41 (a)
Gm21708 34
  • 41 (a)
Rbmy 34
  • 41 (a)
(Canis familiaris)
Mammalia -- 34
  • 32 (a)
(Gallus gallus)
Aves RBMX 34
  • 61 (a)
(Anolis carolinensis)
Reptilia -- 34
  • 57 (a)
(Danio rerio)
Actinopterygii rbmx 34
  • 51 (a)
fruit fly
(Drosophila melanogaster)
Insecta tra2 34
  • 15 (a)
(Caenorhabditis elegans)
Secernentea rsp-8 34
  • 18 (a)
Species where no ortholog for RBMY1D was found in the sources mined by GeneCards:
  • 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

Gene Tree for RBMY1D (if available)
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 Variation AA Info Type
rs112654477 -- 21,875,134(-) A/G genic_downstream_transcript_variant, intron_variant
rs200497994 -- 21,876,576(-) T/A genic_downstream_transcript_variant, intron_variant
rs283687 -- 21,900,653(-) A/G genic_upstream_transcript_variant, intron_variant
rs324923 -- 21,899,789(-) T/A genic_upstream_transcript_variant, intron_variant
rs324924 -- 21,899,800(-) C/G genic_upstream_transcript_variant, intron_variant

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

Variant ID Type Subtype PubMed ID
dgv2555e212 CNV gain 25503493
esv2758908 CNV gain+loss 17122850
esv3340077 CNV duplication 20981092
esv3577597 CNV gain 25503493
nsv10026 CNV gain 18304495
nsv1076748 CNV duplication 25765185
nsv1078161 CNV duplication 25765185
nsv1115938 CNV duplication 24896259
nsv1129122 CNV duplication 24896259
nsv1140100 CNV duplication 24896259
nsv1153997 CNV duplication 26484159
nsv469635 CNV loss 16826518
nsv469695 CNV loss 16826518
nsv471611 CNV gain+loss 15918152
nsv819669 CNV insertion 19587683
nsv953112 CNV duplication 24416366

Additional Variant Information for RBMY1D Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

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

(2) MalaCards diseases for RBMY1D Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
  • spermatogenic failure
male reproductive system disease
  • genital diseases, male
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for 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 DC (Nature 2003) 2 3 4 58
  2. RBMY, a male germ cell-specific RNA-binding protein, activated in human liver cancers and transforms rodent fibroblasts. (PMID: 15184870) Tsuei DJ … Chang MH (Oncogene 2004) 3 58
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 4 58
  4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PMID: 12477932) Strausberg RL … Mammalian Gene Collection Program Team (Proceedings of the National Academy of Sciences of the United States of America 2002) 3 58
  5. Structure and organization of the RBMY genes on the human Y chromosome: transposition and amplification of an ancestral autosomal hnRNPG gene. (PMID: 9598316) Chai NN … Yen PH (Genomics 1998) 3 58

Products for RBMY1D Gene

Sources for RBMY1D Gene

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