RBMY1D Gene
protein-coding GIFtS: 31
GCID: GC0YM024026
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RNA binding motif protein, Y-linked, family 1, member D
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Aliases
for RBMY1D gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
and/or 10fRNAdb)
About This Section
|
| Aliases |
|---|
| RNA Binding Motif Protein, Y-Linked, Family 1, Member D1 2 | | RNA-Binding Motif Protein, Y Chromosome, Family 1 Member D2 |
Export aliases for RBMY1D gene to outside databasesPrevious GC identifers: GC0YU900271 GC0YM022435 |
Summaries
for RBMY1D gene(According to Entrez Gene,
Tocris Bioscience,
Wikipedia's
Gene Wiki,
PharmGKB,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
|
Entrez Gene summary for RBMY1D:
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 ofchromosome Y and the encoded protein is thought to be involved in spermatogenesis. Most copies of this locus arepseudogenes, although six highly similar copies have full-length ORFs and are considered functional. Four functionalcopies of this gene are found within inverted repeat IR2; two functional copies of this gene are found in palindromeP3, along with two copies of PTPN13-like, Y-linked. (provided by RefSeq, Jul 2008)
UniProtKB/Swiss-Prot: RBY1D_HUMAN, P0C7P1Function: RNA-binding protein which may be involved in spermatogenesis. Required for sperm development, possibly byparticipating in pre-mRNA splicing in the testis
|
Genomic Views
for RBMY1D gene
(According to
GeneLoc and/or
HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to
UCSC (hg19) and
Ensembl (release 69),
Regulatory elements and Epigenetics data according to
QIAGEN,
SABiosciences, and/or
SwitchGear Genomics)
About This Section
| Regulatory elements:
 SABiosciences Regulatory transcription factor binding sites in the RBMY1D gene promoter:
POU2F1 POU2F1b POU2F1a POU2F1c CUTL1 GATA-1
Other transcription factors
Search SABiosciences Chromatin IP Primers for RBMY1D
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat RBMY1D |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: Yq11.223 Ensembl cytogenetic band: Yq11.223 HGNC cytogenetic band: Yq11.223RBMY1D Gene in genomic location: bands according to Ensembl, locations according to
 (and/or Entrez Gene and/or Ensembl if different)
GeneLoc information about chromosome Y GeneLoc Exon Structure GeneLoc location for GC0YM024026: view genomic region
(about GC identifiers)
Start:
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24,026,223 bp from pter |
End:
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24,040,673 bp from pter |
Size:
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14,451 bases |
Orientation:
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minus strand |
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Proteins
for RBMY1D gene
(According to
1UniProtKB,
HORDE,
neXtProt,
Ensembl,
and/or Reactome,
Modification sites according to 2PhosphoSitePlus,
Specific Peptides from DME,
Protein expression images according to data from SPIRE MOPED and PaxDb,
RefSeq according to NCBI,
PDB rendering according to OCA and/or Proteopedia,
Recombinant Proteins
from
EMD Millipore,
R&D Systems,
GenScript,
Enzo Life Sciences,
OriGene,
Novus Biologicals,
Sino Biological,
ProSpec, and/or
Uscn,
Biochemical Assays by
EMD Millipore,
R&D Systems,
OriGene,
GenScript,
Cell Signaling Technology,
Enzo Life Sciences, and/or
Uscn,
Ontologies according to Gene
Ontology Consortium 01 Mar 2013 and
Entrez Gene,
Antibodies by
EMD Millipore,
R&D Systems,
GenScript,
Cell Signaling Technology,
OriGene,
Novus Biologicals,
Thermo Fisher Scientific,
Abcam, and/or
Uscn)
About This Section
|
UniProtKB/Swiss-Prot: RBY1D_HUMAN, P0C7P1 (See
protein sequence)Recommended Name: RNA-binding motif protein, Y chromosome, family 1 member D Size: 496 amino acids; 55775 Da
Subunit: Interacts with splicing factor proteins SFRS3/SRP20, TRA2B/SFRS10, KHDRBS1/SAM68 and KHDRBS3
Subcellular location: Nucleus
Developmental stage: Expressed in all of the transcriptionally active stages of germ cell development fromspermatogonia through spermatocytes to round spermatids
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 representpseudogenes. The proteins are very similar, which makes the characterization of each protein difficult. Thus, mostexperiments do not discriminate between the different members. One can therefore suppose that reported interactionswith a RBMY1 protein involve all the proteinsExplore the universe of human proteins at neXtProt for RBMY1D: NX_P0C7P1
Post-translational modifications:
View modification sites using PhosphoSitePlus2View neXtProt modification sites for NX_P0C7P1
RBMY1D Protein expression data from MOPED and PaxDb: About this image 
REFSEQ proteins: NP_001006120.2
ENSEMBL proteins: ENSP00000372127 ENSP00000372099 ENSP00000372124 ENSP00000399181
Human Recombinant Protein Products:
Gene Ontology (GO): 1 cellular component term (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0005634 | nucleus |
IEA | -- |
RBMY1D for ontologies About GeneDecksing
RBMY1D Antibody Products:
Assay Products for RBMY1D: |
Protein
Domains /
Families
for RBMY1D gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
RBMY1D for domains About GeneDecksing
3 InterPro domains/families:Graphical View of Domain Structure for InterPro Entry P0C7P1ProtoNet protein and cluster: P0C7P1 UniProtKB/Swiss-Prot: RBY1D_HUMAN, P0C7P1Similarity: Contains 1 RRM (RNA recognition motif) domain |
Function
for RBMY1D gene
(According to 1UniProtKB,
Genatlas,
LifeMap Discovery™,
IUBMB, and/or
2DME,
Human phenotypes from GenomeRNAi,
Animal models from MGI Mar 06 2013,
bound targets from SABiosciences,
miRNA Gene Targets from miRTarBase
shRNA from
OriGene,
RNAi from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
microRNA from QIAGEN,
Gene Editing from DNA2.0,
Clones from EMD Millipore,
OriGene,
SwitchGear Genomics,
GenScript,
Sino Biological,
DNA2.0,
and Vector BioLabs,
Cell Lines from GenScript,
LifeMap BioReagents,
In Situ Hybridization Assays from Advanced Cell Diagnostics,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene.)
About This Section
|
Function Summary:
UniProtKB/Swiss-Prot: RBY1D_HUMAN, P0C7P1Function: RNA-binding protein which may be involved in spermatogenesis. Required for sperm development, possibly byparticipating in pre-mRNA splicing in the testis
Clone
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In Situ Assay
Products: |
 | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for RBMY1D |
Gene Ontology (GO): 3 molecular function terms (GO ID links to tree view): About this table
RBMY1D for ontologies About GeneDecksing
|
Pathways & Interactions
for RBMY1D gene
(Pathways according to
EMD Millipore,
R&D Systems,
Cell Signaling Technology,
KEGG,
PharmGKB,
BioSystems,
Reactome,
Tocris Bioscience,
GeneGo (Thomson Reuters),
QIAGEN,
and/or UniProtKB,
Sets of similar genes according to GeneDecks,
Interaction Networks according to
SABiosciences,
and/or STRING,
Interactions according to 1UniProtKB,
2MINT,
3I2D, and/or
4STRING,
with links to IntAct and
Ensembl,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene).
About This Section
|
Interactions:
Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for RBMY1D
Gene Ontology (GO): 2 biological process terms (GO ID links to tree view): About this table
RBMY1D for ontologies About GeneDecksing
|
Drugs & Compounds
for RBMY1D gene(Chemical Compounds according to UniProtKB, Enzo Life Sciences,
EMD Millipore, Tocris Bioscience
HMDB,
BitterDB, and/or
Novoseek, and Drugs according to
DrugBank,
Enzo Life Sciences, and/or
PharmGKB, with drugs/clinical trials/news
search links to CenterWatch)
About This Section
|
 Browse Tocris compounds for RBMY1D
Search CenterWatch for drugs/clinical trials and news about RBMY1D / RBY1D
|
Transcripts
for RBMY1D gene(Secondary structures according to
fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene
(Build 235 Homo sapiens; Mar 10 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or
AceView,
transcript ids from Ensembl
with links to UCSC,
exon structure from GeneLoc,
alternative splicing isoforms according to ASD and/or
ECgene,
RNAi Products from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
shRNA from
OriGene,
microRNA from QIAGEN,
Tagged/untagged cDNA clones from
OriGene,
SwitchGear Genomics,
GenScript,
DNA2.0,
Vector BioLabs,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN
)
About This Section
|
REFSEQ mRNAs for RBMY1D gene: NM_001006120.2 4 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000382680(uc004fuu.3 uc011nbe.2 uc010nxb.2 uc004fuv.3)
ENST00000382653(uc010nxc.1) ENST00000382677 ENST00000418956
Clone
Products: | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for RBMY1D
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for RBMY1D
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling
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GeneLoc Exon Structure
|
Expression
for RBMY1D gene
(RNA expression data according to
H-InvDB,
NONCODE,
miRBase, and
RNAdb,
Expression images according to data from
BioGPS,
Illumina Human BodyMap, and
CGAP
SAGE,
Sets of similar genes according to GeneDecks,
in vivo and in vitro expression data from LifeMap Discovery™,
plus additional links to
Genevestigator, and/or
SOURCE, and/or
BioGPS, and/or
UniProtKB,
PCR Arrays from
SABiosciences,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN,
In Situ Hybridization Assays from Advanced Cell Diagnostics)
About This Section
| RBMY1D expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: --
About this image
See RBMY1D Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for RBMY1D
UniProtKB/Swiss-Prot: RBY1D_HUMAN, P0C7P1Tissue specificity: Testis-specific
SABiosciences Custom PCR Arrays for RBMY1D
Primer
Products: | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for RBMY1D
Browse OriGene validated miRNA SYBR primer pairs
| | | Search SABiosciences RT2 qPCR
Primer Assays in human, mouse, rat RBMY1D | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat RBMY1D | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat RBMY1D | In Situ
Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for RBMY1D |
Orthologs
for RBMY1D gene
(Orthologs according to
1,2HomoloGene (2older version, for species not in 1newer version),
3euGenes,
4SGD
,
5MGI Mar 06 2013,
with possible further links to
Flybase
and/or
WormBase,
and/or
6Ensembl pan taxonomic compara ,
Gene Trees according to Ensembl and
TreeFam)
About This Section
|
This gene was present in the common ancestor of eukaryotes.
Orthologs for RBMY1D gene from 6/15 species (see all 15) About this table
ENSEMBL Gene Tree for RBMY1D (if available)
TreeFam Gene Tree for RBMY1D (if available) |
Paralogs
for RBMY1D gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| Paralogs for RBMY1D gene
- RBMY1E1 2 RBMY1A11 2 RBMY1B1 2 RBMY1F1 2 RBMY1J1 2 RBMXL22 RBMXL32 TRA2B2
- RBMXL12 CIRBP2 RBM32 TRA2A2 RBMX2
18/19 SIMAP similar genes for RBMY1D using alignment to 2 protein entries: RBY1D_HUMAN (see all proteins)
(see all similar genes):RBMY1C RBMY1E RBMY1B RBMY1F RBMY1J RBMY1A1
RBM YRRM HNRNPA1 RBMX PABPC4 CIRBP
RBMXL2 RBM38 RBMXL1 RBM3 SFRS3 SRSF5
RBMY1D for paralogs About GeneDecksing
|
Genomic Variants
for RBMY1D gene(SNPs/Variants according to the
1NCBI SNP Database,
2Ensembl,
3PupaSUITE,
UniProtKB, and
DNA2.0,
Linkage Disequilibrium by HapMap,
Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene
Mutation Database (HGMD) and the Locus Specific Mutation
Databases (LSDB), Blood group antigen gene mutations by BGMUT,
Resequencing Primers from QIAGEN,
Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
About This Section
|
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV): 8 variations for RBMY1D
8 CNVs: 97200 0832 83942 31589 83941 59626 4184 97201 | SABiosciences Cancer Mutation PCR Assays |
| | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing RBMY1D |
|
Disorders
/ Diseases
for RBMY1D gene
(in which this Gene is Involved, According to MalaCards,
OMIM, UniProtKB,
the University of Copenhagen DISEASES
database,
Genatlas, GeneTests,
GAD,
HuGE Navigator,
and/or TGDB.)
About This Section
|
RBMY1D for disorders About GeneDecksing
2  diseases for RBMY1D: About MalaCardsazoospermia liver cancer
Export disorders for RBMY1D gene to outside databases
|
Publications
for RBMY1D gene (in
PubMed.
Associations of this gene to articles via
1Entrez Gene,
2UniProtKB/Swiss-Prot,
3HGNC,
4GAD,
5PharmGKB,
6HMDB,
7DrugBank,
8UniProtKB/TrEMBL,
9 Novoseek, and/or
10fRNAdb)
About This Section
|
PubMed articles for RBMY1D gene integrated from 9 sources:
(articles sorted by number of sources associating them with RBMY1D) | |  | Utopia: connect your pdf to the dynamic
world of online information |
- The male-specific region of the human Y chromosome is a mosaic of discrete sequence classes. (PubMed id 12815422)1, 2, 3 Skaletsky H.... Page D.C. (2003)
- RBMY, a male germ cell-specific RNA-binding protein, activated in human liver cancers and transforms rodent fibroblasts. (PubMed id 15184870)1 Tsuei D.J....Chang M.H. (2004)
- Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (2002)
- Structure and organization of the RBMY genes on the human Y chromosome: transposition and amplification of an ancestral autosomal hnRNPG gene. (PubMed id 9598316)1 Chai N.-N.... Yen P.H. (1998)
- Degeneracy in human multicopy RBM (YRRM), a candidate spermatogenesis gene. (PubMed id 8875892)1 Prosser J.... Cooke H.J. (1996)
- A Y chromosome gene family with RNA-binding protein homology: candidates for the azoospermia factor AZF controlling human spermatogenesis. (PubMed id 8269511)1 Ma K.... Jobling M. (1993)
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External Searches for RBMY1D gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
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Genome Databases showing RBMY1D gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing RBMY1D gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing RBMY1D gene(According to PharmGKB,
ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section
|
| Name | Description |
| PharmGKB entry for RBMY1D | Pharmacogenomics, SNPs, Pathways |
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| | |
About This Section
| Patent Information for RBMY1D gene:
Search GeneIP for patents involving RBMY1D
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for RBMY1D gene(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Uscn, Thermo Fisher Scientific, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or
Enzo Life Sciences),
In Situ Hybridization Assays from
Advanced Cell Diagnostics
About This Section
|
 | |
 | |
 |
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