Human Gene RBM41 (ENST00000372479.8_10) from GENCODE V47lift37
  Description: RNA binding motif protein 41, transcript variant 1 (from RefSeq NM_018301.5)
Gencode Transcript: ENST00000372479.8_10
Gencode Gene: ENSG00000089682.18_14
Transcript (Including UTRs)
   Position: hg19 chrX:106,295,325-106,362,034 Size: 66,710 Total Exon Count: 7 Strand: -
Coding Region
   Position: hg19 chrX:106,310,757-106,362,003 Size: 51,247 Coding Exon Count: 7 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chrX:106,295,325-106,362,034)mRNA (may differ from genome)Protein (413 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMGIPubMedUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: RBM41_HUMAN
DESCRIPTION: RecName: Full=RNA-binding protein 41; AltName: Full=RNA-binding motif protein 41;
FUNCTION: May bind RNA (Potential).
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

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 4.08 RPKM in Testis
Total median expression: 77.34 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 -4.6031-0.148 Picture PostScript Text
3' UTR -4139.3115432-0.268 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)

SCOP Domains:
54928 - RNA-binding domain, RBD

Protein Data Bank (PDB) 3-D Structure
MuPIT help
2CPX - NMR MuPIT


ModBase Predicted Comparative 3D Structure on Q96IZ5
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
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGDEnsembl   
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003676 nucleic acid binding
GO:0003723 RNA binding
GO:0005515 protein binding
GO:0030626 U12 snRNA binding
GO:0097157 pre-mRNA intronic binding

Biological Process:
GO:0000398 mRNA splicing, via spliceosome
GO:0032502 developmental process

Cellular Component:
GO:0005689 U12-type spliceosomal complex


-  Descriptions from all associated GenBank mRNAs
  JD241721 - Sequence 222745 from Patent EP1572962.
AB114928 - Homo sapiens RNA transcript, HERV-W env, isolate:WE1-17.
AB114953 - Homo sapiens RNA transcript, HERV-W env, isolate:WE5-5.
AB114960 - Homo sapiens RNA transcript, HERV-W env, isolate:WE7-1.
AB114967 - Homo sapiens RNA transcript, HERV-W env, isolate:WE7-11.
AB114969 - Homo sapiens RNA transcript, HERV-W env, isolate:WE7-15.
AB115104 - Homo sapiens RNA transcript, HERV-W env, isolate:CWE3-1.
AB115107 - Homo sapiens RNA transcript, HERV-W env, isolate:CWE3-4.
AB115119 - Homo sapiens RNA transcript, HERV-W env, isolate:CWE6-4.
AB115120 - Homo sapiens RNA transcript, HERV-W env, isolate:CWE6-5.
AB115132 - Homo sapiens RNA transcript, HERV-W env, isolate:CWE9-2.
AB115133 - Homo sapiens RNA transcript, HERV-W env, isolate:CWE9-3.
AB115139 - Homo sapiens RNA transcript, HERV-W env, isolate:CWE10-5.
AB115147 - Homo sapiens RNA transcript, HERV-W env, isolate:CWE12-3.
AB115152 - Homo sapiens RNA transcript, HERV-W env, isolate:CWE13-4.
AB115153 - Homo sapiens RNA transcript, HERV-W env, isolate:CWE13-5.
AB115160 - Homo sapiens RNA transcript, HERV-W env, isolate:CWE15-1.
FN689795 - Homo sapiens partial mRNA for endogenous retroviral family W, env, member 2 (ERVWE2 gene).
DQ573577 - Homo sapiens piRNA piR-41689, complete sequence.
DQ573964 - Homo sapiens piRNA piR-42076, complete sequence.
JD406317 - Sequence 387341 from Patent EP1572962.
JD151829 - Sequence 132853 from Patent EP1572962.
LF385357 - JP 2014500723-A/192860: Polycomb-Associated Non-Coding RNAs.
AL832966 - Homo sapiens mRNA; cDNA DKFZp666B152 (from clone DKFZp666B152).
JD404892 - Sequence 385916 from Patent EP1572962.
JD098870 - Sequence 79894 from Patent EP1572962.
JD376140 - Sequence 357164 from Patent EP1572962.
JD376139 - Sequence 357163 from Patent EP1572962.
JD454132 - Sequence 435156 from Patent EP1572962.
JD451219 - Sequence 432243 from Patent EP1572962.
AK001878 - Homo sapiens cDNA FLJ11016 fis, clone PLACE1003334.
JD498274 - Sequence 479298 from Patent EP1572962.
JD225581 - Sequence 206605 from Patent EP1572962.
JD413313 - Sequence 394337 from Patent EP1572962.
JD198023 - Sequence 179047 from Patent EP1572962.
JD337475 - Sequence 318499 from Patent EP1572962.
JD246791 - Sequence 227815 from Patent EP1572962.
JD165789 - Sequence 146813 from Patent EP1572962.
JD361488 - Sequence 342512 from Patent EP1572962.
JD052194 - Sequence 33218 from Patent EP1572962.
JD326249 - Sequence 307273 from Patent EP1572962.
JD304461 - Sequence 285485 from Patent EP1572962.
JD354903 - Sequence 335927 from Patent EP1572962.
JD362648 - Sequence 343672 from Patent EP1572962.
JD110051 - Sequence 91075 from Patent EP1572962.
BC006986 - Homo sapiens RNA binding motif protein 41, mRNA (cDNA clone MGC:12215 IMAGE:3995903), complete cds.
AK023732 - Homo sapiens cDNA FLJ13670 fis, clone PLACE1011725.
JD312782 - Sequence 293806 from Patent EP1572962.
MA620934 - JP 2018138019-A/192860: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000372479.1, ENST00000372479.2, ENST00000372479.3, ENST00000372479.4, ENST00000372479.5, ENST00000372479.6, ENST00000372479.7, NM_018301, Q5JSN7, Q5JSN8, Q96IZ5, Q9H8F7, Q9NV04, RBM41_HUMAN, uc318jyj.1, uc318jyj.2
UCSC ID: ENST00000372479.8_10
RefSeq Accession: NM_018301.5
Protein: Q96IZ5 (aka RBM41_HUMAN)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

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