Human Gene LST1 (uc010jss.2) Description and Page Index
  Description: Homo sapiens leukocyte specific transcript 1 (LST1), transcript variant 2, mRNA.
RefSeq Summary (NM_205837): The protein encoded by this gene is a membrane protein that can inhibit the proliferation of lymphocytes. Expression of this gene is enhanced by lipopolysaccharide, interferon-gamma, and bacteria. Several transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Oct 2011].
Transcript (Including UTRs)
   Position: hg19 chr6:31,554,476-31,556,686 Size: 2,211 Total Exon Count: 4 Strand: +
Coding Region
   Position: hg19 chr6:31,555,077-31,556,362 Size: 1,286 Coding Exon Count: 3 

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 (chr6:31,554,476-31,556,686)mRNA (may differ from genome)Protein (66 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCLynxMGIOMIM
PubMedStanford SOURCETreefamUniProtKBWikipedia

-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): LST1
CDC HuGE Published Literature: LST1
Positive Disease Associations: Psoriasis
Related Studies:
  1. Psoriasis
    , , . [PubMed 0]

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

+  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: 59.30 RPKM in Whole Blood
Total median expression: 159.44 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
5' UTR -73.10209-0.350 Picture PostScript Text
3' UTR -89.50324-0.276 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
IPR007775 - Leukocyte-sp_tscrpt_1_LST1

Pfam Domains:
PF05083 - LST-1 protein

ModBase Predicted Comparative 3D Structure on Q5STA8
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
      
      
      
      
      

-  Descriptions from all associated GenBank mRNAs
  BX647293 - Homo sapiens mRNA; cDNA DKFZp781G1336 (from clone DKFZp781G1336).
AF000425 - Homo sapiens LST1 mRNA, cLST1/A splice variant, complete cds.
AF000424 - Homo sapiens LST1 mRNA, cLST1/C splice variant, complete cds.
JD537486 - Sequence 518510 from Patent EP1572962.
JD282930 - Sequence 263954 from Patent EP1572962.
JD343127 - Sequence 324151 from Patent EP1572962.
AF000426 - Homo sapiens LST1 mRNA, cLST1/E splice variant, complete cds.
BC103855 - Homo sapiens leukocyte specific transcript 1, mRNA (cDNA clone MGC:119006 IMAGE:40003000), complete cds.
BC103856 - Homo sapiens leukocyte specific transcript 1, mRNA (cDNA clone MGC:119007 IMAGE:40003004), complete cds.
Y18486 - Homo sapiens mRNA for LST-1/J protein.
Y18487 - Homo sapiens mRNA for LST-1/K protein.
Y18488 - Homo sapiens mRNA for LST-1/L protein, partial.
Y18489 - Homo sapiens mRNA for LST-1/M protein.
Y18490 - Homo sapiens mRNA for LST-1/N protein.
AY852265 - Homo sapiens LST1/O mRNA, complete cds, alternatively spliced.
AY852266 - Homo sapiens LST1/P mRNA, complete cds, alternatively spliced.
KJ892452 - Synthetic construct Homo sapiens clone ccsbBroadEn_01846 LST1 gene, encodes complete protein.
DQ099382 - Homo sapiens leukocyte specific transcript 1 mRNA, complete cds, alternatively spliced.

-  Other Names for This Gene
  Alternate Gene Symbols: DAAP-90L16.2-002, DADB-70P7.4-002, DAMA-25N12.8-002, DAMC-81L12.3-002, DAQB-87N14.1-002, DASS-280D8.5-002, NM_205837, NP_995309, Q5STA8, Q5STA8_HUMAN
UCSC ID: uc010jss.2
RefSeq Accession: NM_205837
Protein: Q5STA8 CCDS: CCDS54985.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_205837.2
exon count: 4CDS single in 3' UTR: no RNA size: 739
ORF size: 201CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 733.00frame shift in genome: no % Coverage: 99.32
has start codon: yes stop codon in genome: no # of Alignments: 8
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.