Human Gene CERS6 (uc002uec.2)
  Description: Homo sapiens ceramide synthase 6 (CERS6), transcript variant 1, mRNA.
Transcript (Including UTRs)
   Position: hg19 chr2:169,312,759-169,631,644 Size: 318,886 Total Exon Count: 11 Strand: +
Coding Region
   Position: hg19 chr2:169,312,959-169,626,172 Size: 313,214 Coding Exon Count: 11 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesmRNA Descriptions
Other NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr2:169,312,759-169,631,644)mRNA (may differ from genome)Protein (392 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
H-INVHGNCLynxMGIOMIMPubMed
UniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: Q32M63_HUMAN
DESCRIPTION: SubName: Full=Ceramide synthase 6; SubName: Full=LASS6 protein;
SUBCELLULAR LOCATION: Nucleus (By similarity).
SIMILARITY: Contains 1 TLC (TRAM/LAG1/CLN8) 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           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: 16.63 RPKM in Brain - Cerebellar Hemisphere
Total median expression: 387.09 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 -100.50200-0.502 Picture PostScript Text
3' UTR -1485.125472-0.271 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
IPR001356 - Homeodomain
IPR009057 - Homeodomain-like
IPR016439 - Longevity_assurance_LAG1_LAC1
IPR006634 - TLC-dom

Pfam Domains:
PF00046 - Homeobox domain
PF03798 - TLC domain

SCOP Domains:
46689 - Homeodomain-like

ModBase Predicted Comparative 3D Structure on Q32M63
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
  KJ904059 - Synthetic construct Homo sapiens clone ccsbBroadEn_13453 CERS6 gene, encodes complete protein.
AK172775 - Homo sapiens cDNA FLJ23936 fis, clone COLF1951.
BC109284 - Homo sapiens LAG1 homolog, ceramide synthase 6, mRNA (cDNA clone MGC:129949 IMAGE:40031838), complete cds.
BC109285 - Homo sapiens LAG1 homolog, ceramide synthase 6, mRNA (cDNA clone MGC:129950 IMAGE:40031840), complete cds.
AB527953 - Synthetic construct DNA, clone: pF1KB7648, Homo sapiens LASS6 gene for LAG1 homolog, ceramide synthase 6, without stop codon, in Flexi system.
BC030800 - Homo sapiens LAG1 homolog, ceramide synthase 6, mRNA (cDNA clone IMAGE:4396549), complete cds.
JD135600 - Sequence 116624 from Patent EP1572962.
JD240690 - Sequence 221714 from Patent EP1572962.
JD456222 - Sequence 437246 from Patent EP1572962.
JD247403 - Sequence 228427 from Patent EP1572962.
JD332904 - Sequence 313928 from Patent EP1572962.
JD557219 - Sequence 538243 from Patent EP1572962.
JD263680 - Sequence 244704 from Patent EP1572962.
JD185232 - Sequence 166256 from Patent EP1572962.
AK091391 - Homo sapiens cDNA FLJ34072 fis, clone FCBBF3002334.
JD183332 - Sequence 164356 from Patent EP1572962.
JD166644 - Sequence 147668 from Patent EP1572962.
JD553990 - Sequence 535014 from Patent EP1572962.
JD350689 - Sequence 331713 from Patent EP1572962.
JD039461 - Sequence 20485 from Patent EP1572962.
JD385553 - Sequence 366577 from Patent EP1572962.
JD429355 - Sequence 410379 from Patent EP1572962.
JD339422 - Sequence 320446 from Patent EP1572962.
JD315783 - Sequence 296807 from Patent EP1572962.
AK023042 - Homo sapiens cDNA FLJ12980 fis, clone NT2RP2006441.
JD563152 - Sequence 544176 from Patent EP1572962.
JD267112 - Sequence 248136 from Patent EP1572962.
JD237340 - Sequence 218364 from Patent EP1572962.
JD254148 - Sequence 235172 from Patent EP1572962.
JD345808 - Sequence 326832 from Patent EP1572962.
AK123214 - Homo sapiens cDNA FLJ41220 fis, clone BRAMY2019554.
JD267072 - Sequence 248096 from Patent EP1572962.
JD265222 - Sequence 246246 from Patent EP1572962.
JD549768 - Sequence 530792 from Patent EP1572962.
JD318521 - Sequence 299545 from Patent EP1572962.
JD403731 - Sequence 384755 from Patent EP1572962.
JD532041 - Sequence 513065 from Patent EP1572962.
JD095648 - Sequence 76672 from Patent EP1572962.
AK024891 - Homo sapiens cDNA: FLJ21238 fis, clone COL01115.
JD331821 - Sequence 312845 from Patent EP1572962.
JD046180 - Sequence 27204 from Patent EP1572962.
JD554429 - Sequence 535453 from Patent EP1572962.
JD134407 - Sequence 115431 from Patent EP1572962.
JD562489 - Sequence 543513 from Patent EP1572962.
JD133629 - Sequence 114653 from Patent EP1572962.
AL080192 - Homo sapiens mRNA; cDNA DKFZp434B102 (from clone DKFZp434B102).
U52135 - Human breast cancer genetic suppressor element (Ishmael Lower CP1) mRNA, partial sequence.

-  Other Names for This Gene
  Alternate Gene Symbols: LASS6, NM_001256126, NP_001243055, Q32M63, Q32M63_HUMAN, uc002uec.1
UCSC ID: uc002uec.2
RefSeq Accession: NM_001256126
Protein: Q32M63 CCDS: CCDS2228.1, CCDS58734.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001256126.1
exon count: 11CDS single in 3' UTR: no RNA size: 6868
ORF size: 1179CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 2558.00frame shift in genome: no % Coverage: 99.75
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.