Human Gene RBM12 (uc021wcq.1)
  Description: Homo sapiens RNA binding motif protein 12 (RBM12), transcript variant 3, mRNA.
RefSeq Summary (NM_001198838): This gene encodes a protein that contains several RNA-binding motifs, potential transmembrane domains, and proline-rich regions. This gene and the gene for copine I overlap at map location 20q11.21. Alternative splicing in the 5' UTR results in four transcript variants. All variants encode the same protein. [provided by RefSeq, Nov 2010].
Transcript (Including UTRs)
   Position: hg19 chr20:34,236,847-34,252,878 Size: 16,032 Total Exon Count: 3 Strand: -
Coding Region
   Position: hg19 chr20:34,240,446-34,243,244 Size: 2,799 Coding Exon Count: 1 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr20:34,236,847-34,252,878)mRNA (may differ from genome)Protein (932 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
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H-INVHGNCHPRDLynxMalacardsMGI
neXtProtOMIMPubMedTreefamUniProtKBWikipedia
BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: RBM12_HUMAN
DESCRIPTION: RecName: Full=RNA-binding protein 12; AltName: Full=RNA-binding motif protein 12; AltName: Full=SH3/WW domain anchor protein in the nucleus; Short=SWAN;
SUBCELLULAR LOCATION: Nucleus.
SIMILARITY: Contains 3 RRM (RNA recognition motif) domains.
SEQUENCE CAUTION: Sequence=BAA34485.2; Type=Erroneous initiation;

-  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


-  MalaCards Disease Associations
  MalaCards Gene Search: RBM12
Diseases sorted by gene-association score: schizophrenia 19* (950)
* = Manually curated disease association

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
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+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -102.30262-0.390 Picture PostScript Text
3' UTR -907.683599-0.252 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
1WEL - NMR MuPIT 2CPY - NMR MuPIT 2DNN - NMR MuPIT 2EK1 - X-ray 2EK6 - X-ray


ModBase Predicted Comparative 3D Structure on Q9NTZ6
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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 orthologGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
 Protein Sequence    
 Alignment    

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

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm


-  Descriptions from all associated GenBank mRNAs
  U83246 - Homo sapiens copine I mRNA, complete cds.
BC001142 - Homo sapiens copine I, mRNA (cDNA clone MGC:1142 IMAGE:3502122), complete cds.
AB209827 - Homo sapiens mRNA for copine I variant protein.
BC021010 - Homo sapiens copine I, mRNA (cDNA clone IMAGE:4074508).
AK308795 - Homo sapiens cDNA, FLJ98836.
DQ655943 - Homo sapiens clone UGL2a06, mRNA sequence.
DQ655944 - Homo sapiens clone UGL2c06, mRNA sequence.
DQ655945 - Homo sapiens clone UGL2d06, mRNA sequence.
DQ655946 - Homo sapiens clone UGL2e06, mRNA sequence.
DQ656050 - Homo sapiens clone UGL055-A-E5, mRNA sequence.
JD024641 - Sequence 5665 from Patent EP1572962.
JD021600 - Sequence 2624 from Patent EP1572962.
JD024454 - Sequence 5478 from Patent EP1572962.
JD026364 - Sequence 7388 from Patent EP1572962.
JD305131 - Sequence 286155 from Patent EP1572962.
JD063527 - Sequence 44551 from Patent EP1572962.
JD243052 - Sequence 224076 from Patent EP1572962.
JD490660 - Sequence 471684 from Patent EP1572962.
JD498924 - Sequence 479948 from Patent EP1572962.
JD114095 - Sequence 95119 from Patent EP1572962.
AB018308 - Homo sapiens KIAA0765 mRNA for KIAA0765 protein.
JD530772 - Sequence 511796 from Patent EP1572962.
JD336932 - Sequence 317956 from Patent EP1572962.
AL833222 - Homo sapiens mRNA; cDNA DKFZp667H197 (from clone DKFZp667H197).
JD314448 - Sequence 295472 from Patent EP1572962.
JD084256 - Sequence 65280 from Patent EP1572962.
JD049178 - Sequence 30202 from Patent EP1572962.
JD053323 - Sequence 34347 from Patent EP1572962.
JD040693 - Sequence 21717 from Patent EP1572962.
JD049905 - Sequence 30929 from Patent EP1572962.
JD405331 - Sequence 386355 from Patent EP1572962.
JD410171 - Sequence 391195 from Patent EP1572962.
JD256242 - Sequence 237266 from Patent EP1572962.
JD083885 - Sequence 64909 from Patent EP1572962.
JD181994 - Sequence 163018 from Patent EP1572962.
AF345332 - Homo sapiens SWAN mRNA, complete cds.
AF393214 - Homo sapiens swan mRNA, complete cds; alternatively spliced.
JD226153 - Sequence 207177 from Patent EP1572962.
AK092239 - Homo sapiens cDNA FLJ34920 fis, clone NT2RP7002802, highly similar to RNA-binding protein 12.
AK026963 - Homo sapiens cDNA: FLJ23310 fis, clone HEP11655.
JD348569 - Sequence 329593 from Patent EP1572962.
JD240266 - Sequence 221290 from Patent EP1572962.
AL834472 - Homo sapiens mRNA; cDNA DKFZp762P2310 (from clone DKFZp762P2310).
AJ289772 - Homo sapiens mRNA for RNA binding motif protein 12 (RBM12 gene).
BC012787 - Homo sapiens RNA binding motif protein 12, mRNA (cDNA clone MGC:16487 IMAGE:3956772), complete cds.
BC013981 - Homo sapiens RNA binding motif protein 12, mRNA (cDNA clone MGC:19528 IMAGE:3845090), complete cds.
AK074945 - Homo sapiens cDNA FLJ90464 fis, clone NT2RP3002281, highly similar to RNA-binding protein 12.
JD348812 - Sequence 329836 from Patent EP1572962.
JD302658 - Sequence 283682 from Patent EP1572962.
AB015336 - Homo sapiens HRIHFB2091 mRNA, partial cds.
JD092168 - Sequence 73192 from Patent EP1572962.
AK299371 - Homo sapiens cDNA FLJ58274 complete cds, highly similar to RNA-binding protein 12.
JD093825 - Sequence 74849 from Patent EP1572962.
KJ898166 - Synthetic construct Homo sapiens clone ccsbBroadEn_07560 RBM12 gene, encodes complete protein.
DQ893493 - Synthetic construct clone IMAGE:100006123; FLH194302.01X; RZPDo839H0979D RNA binding motif protein 12 (RBM12) gene, encodes complete protein.
DQ896437 - Synthetic construct Homo sapiens clone IMAGE:100010897; FLH194298.01L; RZPDo839H0969D RNA binding motif protein 12 (RBM12) gene, encodes complete protein.
AB385382 - Synthetic construct DNA, clone: pF1KA0765, Homo sapiens RBM12 gene for RNA binding motif protein 12, complete cds, without stop codon, in Flexi system.
JD188185 - Sequence 169209 from Patent EP1572962.
JD304689 - Sequence 285713 from Patent EP1572962.
JD247948 - Sequence 228972 from Patent EP1572962.
JD129948 - Sequence 110972 from Patent EP1572962.
JD549383 - Sequence 530407 from Patent EP1572962.
JD549382 - Sequence 530406 from Patent EP1572962.
JD028864 - Sequence 9888 from Patent EP1572962.
JD142383 - Sequence 123407 from Patent EP1572962.
JD407186 - Sequence 388210 from Patent EP1572962.
JD462583 - Sequence 443607 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: B3KRU2, E1P5R6, HRIHFB2091, KIAA0765, NM_001198838, NP_690051, O94865, Q8N3B1, Q9H196, Q9NTZ6, RBM12_HUMAN
UCSC ID: uc021wcq.1
RefSeq Accession: NM_001198838
Protein: Q9NTZ6 (aka RBM12_HUMAN or RBMC_HUMAN)
CCDS: CCDS13261.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001198838.1
exon count: 3CDS single in 3' UTR: no RNA size: 6682
ORF size: 2799CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 4036.00frame shift in genome: no % Coverage: 99.67
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 6277# strange splices: 0
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.