Human Gene RBM7 (ENST00000540163.5) from GENCODE V44
  Description: Homo sapiens RNA binding motif protein 7 (RBM7), transcript variant 2, mRNA. (from RefSeq NM_016090)
Gencode Transcript: ENST00000540163.5
Gencode Gene: ENSG00000076053.12
Transcript (Including UTRs)
   Position: hg38 chr11:114,400,030-114,410,607 Size: 10,578 Total Exon Count: 5 Strand: +
Coding Region
   Position: hg38 chr11:114,400,672-114,407,807 Size: 7,136 Coding Exon Count: 5 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
Other NamesMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr11:114,400,030-114,410,607)mRNA (may differ from genome)Protein (266 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGencodeGeneCards
HGNCHPRDLynxMalacardsMGIneXtProt
OMIMPubMedUniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: RBM7_HUMAN
DESCRIPTION: RecName: Full=RNA-binding protein 7; AltName: Full=RNA-binding motif protein 7;
FUNCTION: Possible involved in germ cell RNA processing and meiosis.
TISSUE SPECIFICITY: Ubiquitous.
SIMILARITY: Contains 1 RRM (RNA recognition motif) domain.

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 0.56 RPKM in Testis
Total median expression: 2.80 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 -264.30642-0.412 Picture PostScript Text
3' UTR -702.102800-0.251 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
IPR000504 - RRM_dom

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

ModBase Predicted Comparative 3D Structure on Q9Y580
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  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 BrowserGenome BrowserGenome BrowserNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGIRGDEnsembl   
Protein SequenceProtein SequenceProtein Sequence   
AlignmentAlignmentAlignment   

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003676 nucleic acid binding
GO:0003723 RNA binding
GO:0003727 single-stranded RNA binding
GO:0005515 protein binding

Biological Process:
GO:0000381 regulation of alternative mRNA splicing, via spliceosome
GO:0051321 meiotic cell cycle

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005730 nucleolus


-  Descriptions from all associated GenBank mRNAs
  CU687143 - Synthetic construct Homo sapiens gateway clone IMAGE:100022757 3' read C11orf71 mRNA.
AK312619 - Homo sapiens cDNA, FLJ93002, Homo sapiens RNA binding motif protein 7 (RBM7), mRNA.
AK002015 - Homo sapiens cDNA FLJ11153 fis, clone PLACE1006917, weakly similar to HSH49 PROTEIN.
AB209753 - Homo sapiens mRNA for Hypothetical protein FLJ11153 variant protein.
AK225667 - Homo sapiens mRNA for RNA binding motif protein 7 variant, clone: STM05124.
AF156098 - Homo sapiens RNA binding motif protein 7 (RBM7) mRNA, complete cds.
BC034381 - Homo sapiens RNA binding motif protein 7, mRNA (cDNA clone MGC:34253 IMAGE:5180771), complete cds.
AK225615 - Homo sapiens mRNA for RNA binding motif protein 7 variant, clone: REC06221.
BC070262 - Homo sapiens RNA binding motif protein 7, mRNA (cDNA clone MGC:88249 IMAGE:4619267), complete cds.
BC013320 - Homo sapiens RNA binding motif protein 7, mRNA (cDNA clone IMAGE:4099471), containing frame-shift errors.
AB464181 - Synthetic construct DNA, clone: pF1KB6355, Homo sapiens RBM7 gene for RNA binding motif protein 7, without stop codon, in Flexi system.
HQ447093 - Synthetic construct Homo sapiens clone IMAGE:100070376; CCSB008444_01 RNA binding motif protein 7 (RBM7) gene, encodes complete protein.
KJ892948 - Synthetic construct Homo sapiens clone ccsbBroadEn_02342 RBM7 gene, encodes complete protein.
CU689870 - Synthetic construct Homo sapiens gateway clone IMAGE:100016930 5' read RBM7 mRNA.
JD316926 - Sequence 297950 from Patent EP1572962.
JD037710 - Sequence 18734 from Patent EP1572962.
JD504111 - Sequence 485135 from Patent EP1572962.
JD047791 - Sequence 28815 from Patent EP1572962.
JD310463 - Sequence 291487 from Patent EP1572962.
JD562916 - Sequence 543940 from Patent EP1572962.
JD280212 - Sequence 261236 from Patent EP1572962.
JD242841 - Sequence 223865 from Patent EP1572962.
JD064537 - Sequence 45561 from Patent EP1572962.
JD064538 - Sequence 45562 from Patent EP1572962.
JD333258 - Sequence 314282 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: B2R6K8, ENST00000540163.1, ENST00000540163.2, ENST00000540163.3, ENST00000540163.4, NM_016090, Q9NUT4, Q9Y580, RBM7_HUMAN, uc001pov.1, uc001pov.2, uc001pov.3, uc001pov.4, uc001pov.5
UCSC ID: ENST00000540163.5
RefSeq Accession: NM_016090
Protein: Q9Y580 (aka RBM7_HUMAN)
CCDS: CCDS8370.1, CCDS66233.1

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