Human Gene RBM26 (uc001vky.2) Description and Page Index
  Description: Homo sapiens RNA binding motif protein 26 (RBM26), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr13:79,894,100-79,979,923 Size: 85,824 Total Exon Count: 21 Strand: -
Coding Region
   Position: hg19 chr13:79,894,756-79,979,909 Size: 85,154 Coding Exon Count: 21 

Page IndexSequence and LinksGenetic AssociationsCTDGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesmRNA DescriptionsOther Names
Model InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr13:79,894,100-79,979,923)mRNA (may differ from genome)Protein (980 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaBioGPS
CGAPEnsemblEntrez GeneExonPrimerGeneCardsGeneNetwork
H-INVHGNCHPRDLynxMGIPubMed
Stanford SOURCETreefamUniProtKBWikipedia

-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): RBM26
CDC HuGE Published Literature: RBM26
Positive Disease Associations: Cholesterol, LDL
Related Studies:
  1. Cholesterol, LDL
    Sekar Kathiresan et al. BMC medical genetics 2007, A genome-wide association study for blood lipid phenotypes in the Framingham Heart Study., BMC medical genetics. [PubMed 17903299]
    Using a 100K genome-wide scan, we have generated a set of putative associations for common sequence variants and lipid phenotypes. Validation of selected hypotheses in additional samples did not identify any new loci underlying variability in blood lipids. Lack of replication may be due to inadequate statistical power to detect modest quantitative trait locus effects (i.e., <1% of trait variance explained) or reduced genomic coverage of the 100K array. GWAS in FHS using a denser genome-wide genotyping platform and a better-powered replication strategy may identify novel loci underlying blood lipids.

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

+  Common Gene Haplotype Alleles
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-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 18.07 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 479.48 RPKM



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

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
3' UTR -143.41656-0.219 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
  Pfam Domains:
PF01480 - PWI domain

SCOP Domains:
101233 - PWI domain
54928 - RNA-binding domain, RBD
90229 - CCCH zinc finger

ModBase Predicted Comparative 3D Structure on Q5T8P6-3
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 orthologGenome BrowserNo ortholog
Gene Details   Gene Details 
Gene Sorter   Gene Sorter 
    WormBase 
    Protein Sequence 
    Alignment 

-  Descriptions from all associated GenBank mRNAs
  BX648672 - Homo sapiens mRNA; cDNA DKFZp686G2145 (from clone DKFZp686G2145).
BC041655 - Homo sapiens RNA binding motif protein 26, mRNA (cDNA clone MGC:47623 IMAGE:4384399), complete cds.
AK302871 - Homo sapiens cDNA FLJ60992 complete cds.
BC111697 - Homo sapiens RNA binding motif protein 26, mRNA (cDNA clone MGC:133295 IMAGE:40038080), complete cds.
BC111739 - Homo sapiens RNA binding motif protein 26, mRNA (cDNA clone MGC:133296 IMAGE:40038082), complete cds.
KJ894521 - Synthetic construct Homo sapiens clone ccsbBroadEn_03915 RBM26 gene, encodes complete protein.
KJ903047 - Synthetic construct Homo sapiens clone ccsbBroadEn_12441 RBM26 gene, encodes complete protein.
AF116667 - Homo sapiens PRO1777 mRNA, complete cds.
AK024610 - Homo sapiens cDNA: FLJ20957 fis, clone ADSE02053.
AK027339 - Homo sapiens cDNA FLJ14433 fis, clone HEMBA1006676.
BC000791 - Homo sapiens RNA binding motif protein 26, mRNA (cDNA clone IMAGE:3451565), complete cds.
AF273052 - Homo sapiens CTCL tumor antigen se70-2 mRNA, complete cds.
BC065024 - Homo sapiens chromosome 13 open reading frame 10, mRNA (cDNA clone IMAGE:6044641), partial cds.
AX775883 - Sequence 153 from Patent WO03048202.
AL834343 - Homo sapiens mRNA; cDNA DKFZp761B0915 (from clone DKFZp761B0915).
AK027456 - Homo sapiens cDNA FLJ14550 fis, clone NT2RM2001696.
AX775885 - Sequence 155 from Patent WO03048202.
JD553094 - Sequence 534118 from Patent EP1572962.
AX775881 - Sequence 151 from Patent WO03048202.
AK302927 - Homo sapiens cDNA FLJ56367 complete cds.
KJ903046 - Synthetic construct Homo sapiens clone ccsbBroadEn_12440 RBM26 gene, encodes complete protein.
JD121952 - Sequence 102976 from Patent EP1572962.
BC030806 - Homo sapiens RNA binding motif protein 26, mRNA (cDNA clone IMAGE:4695545), with apparent retained intron.

-  Other Names for This Gene
  Alternate Gene Symbols: C13orf10, NM_022118, NP_071401, PRO1777, Q5T8P6-3
UCSC ID: uc001vky.2
RefSeq Accession: NM_022118
Protein: Q5T8P6-3, splice isoform of Q5T8P6 CCDS: CCDS9462.1, CCDS66566.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_022118.3
exon count: 21CDS single in 3' UTR: no RNA size: 3624
ORF size: 2943CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 5996.00frame shift in genome: no % Coverage: 99.70
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: 0# 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.