Human Gene RBMY1E (ENST00000382658.5) Description and Page Index
  Description: The sequence shown here is derived from an Ensembl automatic analysis pipeline and should be considered as preliminary data. (from UniProt J3KPK3)
RefSeq Summary (NM_001320949): 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]. Sequence Note: The RefSeq transcript and protein were derived from genomic sequence to make the sequence consistent with the reference genome assembly. The genomic coordinates used for the transcript record were based on alignments. ##Evidence-Data-START## RNAseq introns :: mixed/partial sample support SAMEA1968968, SAMEA2144333 [ECO:0000350] ##Evidence-Data-END##
Gencode Transcript: ENST00000382658.5
Gencode Gene: ENSG00000242389.8
Transcript (Including UTRs)
   Position: hg38 chrY:21,903,620-21,918,032 Size: 14,413 Total Exon Count: 11 Strand: -
Coding Region
   Position: hg38 chrY:21,903,896-21,916,054 Size: 12,159 Coding Exon Count: 10 

Page IndexSequence and LinksUniProtKB CommentsRNA-Seq ExpressionMicroarray ExpressionRNA Structure
Protein StructureOther SpeciesGO AnnotationsmRNA DescriptionsOther NamesMethods
Data last updated: 2019-09-04

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chrY:21,903,620-21,918,032)mRNA (may differ from genome)Protein (459 aa)
Gene SorterGenome BrowserOther Species FASTATable SchemaBioGPSCGAP
EnsemblExonPrimerGeneCardsHGNCLynxMGI
PubMedStanford SOURCEUniProtKB

-  Comments and Description Text from UniProtKB
  ID: J3KPK3_HUMAN
DESCRIPTION: SubName: Full=RNA-binding motif protein, Y chromosome, family 1 member E;
CAUTION: The sequence shown here is derived from an Ensembl automatic analysis pipeline and should be considered as preliminary data.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 0.29 RPKM in Testis
Total median expression: 0.29 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -40.60117-0.347 Picture PostScript Text
3' UTR -54.10276-0.196 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR012677 - Nucleotide-bd_a/b_plait
IPR012604 - RBM1CTR
IPR000504 - RRM_dom

Pfam Domains:
PF08081 - RBM1CTR (NUC064) family
PF00076 - RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain)

ModBase Predicted Comparative 3D Structure on J3KPK3
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-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
Genome BrowserNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGI     
Protein Sequence     
Alignment     

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003676 nucleic acid binding
GO:0003723 RNA binding


-  Descriptions from all associated GenBank mRNAs
  BC144422 - Homo sapiens cDNA clone MGC:177960 IMAGE:9052943, complete cds.
CU688804 - Synthetic construct Homo sapiens gateway clone IMAGE:100019677 5' read RBMY1F mRNA.
BC047768 - Homo sapiens RNA binding motif protein, Y-linked, family 1, member A1, mRNA (cDNA clone MGC:54233 IMAGE:5744153), complete cds.
BC070298 - Homo sapiens RNA binding motif protein, Y-linked, family 1, member A1, mRNA (cDNA clone MGC:88295 IMAGE:6615329), complete cds.
X76059 - H.sapiens mRNA for YRRM1.
JD202603 - Sequence 183627 from Patent EP1572962.
BC136862 - Homo sapiens RNA binding motif protein, Y-linked, family 1, member D, mRNA (cDNA clone MGC:168476 IMAGE:9020853), complete cds.
BC140758 - Homo sapiens cDNA clone MGC:176435 IMAGE:9021626, complete cds.
BC144423 - Homo sapiens cDNA clone IMAGE:9052944.
BC144459 - Homo sapiens cDNA clone MGC:178002 IMAGE:9052985, complete cds.
JD036629 - Sequence 17653 from Patent EP1572962.
KJ905893 - Synthetic construct Homo sapiens clone ccsbBroadEn_15563 RBMY1A1 gene, encodes complete protein.
HQ447544 - Synthetic construct Homo sapiens clone IMAGE:100070883; CCSB014935_03 RNA binding motif protein, Y-linked, family 1, member A1 (RBMY1A1) gene, encodes complete protein.
BC160023 - Synthetic construct Homo sapiens clone IMAGE:100063959, MGC:193138 RNA binding motif protein, Y-linked, family 1, member E (RBMY1E) mRNA, encodes complete protein.
CU687086 - Synthetic construct Homo sapiens gateway clone IMAGE:100023167 5' read RBMY1A1 mRNA.
JD309043 - Sequence 290067 from Patent EP1572962.
JD502792 - Sequence 483816 from Patent EP1572962.
JD127104 - Sequence 108128 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: BC070298, J3KPK3, J3KPK3_HUMAN, uc010nxd.1, uc010nxd.2, uc010nxd.3, uc010nxd.4
UCSC ID: uc010nxd.4
RefSeq Accession: NM_001320949
Protein: J3KPK3

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.