Human Gene RIMKLB (uc001quw.2)
  Description: Homo sapiens ribosomal modification protein rimK-like family member B (RIMKLB), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr12:8,850,518-8,930,398 Size: 79,881 Total Exon Count: 8 Strand: +
Coding Region
   Position: hg19 chr12:8,866,463-8,930,266 Size: 63,804 Coding Exon Count: 6 

Page IndexSequence and LinksPrimersCTDGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesmRNA DescriptionsPathways
Other NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr12:8,850,518-8,930,398)mRNA (may differ from genome)Protein (307 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCLynxMGIOMIM
PubMedReactomeTreefamUniProtKBBioGrid CRISPR DB

-  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
  • C111118 2',3,3',4',5-pentachloro-4-hydroxybiphenyl
  • D015123 7,8-Dihydro-7,8-dihydroxybenzo(a)pyrene 9,10-oxide
  • D000082 Acetaminophen
  • D001151 Arsenic
  • D005557 Formaldehyde
  • C517826 tetrabrominated diphenyl ether 47

+  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: 17.94 RPKM in Artery - Tibial
Total median expression: 442.74 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 -488.241262-0.387 Picture PostScript Text
3' UTR -30.50132-0.231 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:
PF02655 - ATP-grasp domain
PF02955 - Prokaryotic glutathione synthetase, ATP-grasp domain
PF08443 - RimK-like ATP-grasp domain

SCOP Domains:
56059 - Glutathione synthetase ATP-binding domain-like

ModBase Predicted Comparative 3D Structure on Q9ULI2-2
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 Details     
Gene Sorter     
      
      
      

-  Descriptions from all associated GenBank mRNAs
  BC033793 - Homo sapiens ribosomal modification protein rimK-like family member B, mRNA (cDNA clone MGC:45396 IMAGE:5139256), complete cds.
AK302847 - Homo sapiens cDNA FLJ58713 complete cds.
BC006368 - Homo sapiens family with sequence similarity 80, member B, mRNA (cDNA clone IMAGE:4131990).
AB033064 - Homo sapiens KIAA1238 mRNA for KIAA1238 protein.
AB385440 - Synthetic construct DNA, clone: pF1KA1238, Homo sapiens FAM80B gene for ribosomal protein S6 modification-like protein B, complete cds, without stop codon, in Flexi system.
KJ902958 - Synthetic construct Homo sapiens clone ccsbBroadEn_12352 RIMKLB gene, encodes complete protein.
BC021977 - Homo sapiens ribosomal modification protein rimK-like family member B, mRNA (cDNA clone IMAGE:3951537), partial cds.
JD181281 - Sequence 162305 from Patent EP1572962.
JD462741 - Sequence 443765 from Patent EP1572962.
JD052321 - Sequence 33345 from Patent EP1572962.
JD373628 - Sequence 354652 from Patent EP1572962.
CU689744 - Synthetic construct Homo sapiens gateway clone IMAGE:100016686 5' read FAM80B mRNA.
AK311171 - Homo sapiens cDNA, FLJ18213.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q9ULI2 (Reactome details) participates in the following event(s):

R-HSA-8942575 N-acetylaspartylglutamate synthase A ligates NAA, L-Glu forming NAAG
R-HSA-70614 Amino acid synthesis and interconversion (transamination)
R-HSA-71291 Metabolism of nitrogenous molecules
R-HSA-1430728 Metabolism

-  Other Names for This Gene
  Alternate Gene Symbols: BC006368, FAM80B, KIAA1238, NM_020734, NP_065785, Q9ULI2-2
UCSC ID: uc001quw.2
RefSeq Accession: NM_020734
Protein: Q9ULI2-2, splice isoform of Q9ULI2

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: BC006368.2
exon count: 8CDS single in 3' UTR: no RNA size: 2044
ORF size: 924CDS single in intron: no Alignment % ID: 99.95
txCdsPredict score: 1854.50frame shift in genome: no % Coverage: 99.22
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.