Human Gene LYZL2 (uc001ivk.3) Description and Page Index
  Description: Homo sapiens lysozyme-like 2 (LYZL2), mRNA.
RefSeq Summary (NM_183058): Lysozymes (see LYZ; MIM 153450), especially C-type lysozymes, are well-recognized bacteriolytic factors widely distributed in the animal kingdom and play a mainly protective role in host defense. LYZL2 is a member of a family of lysozyme-like genes (Zhang et al., 2005 [PubMed 16014814]).[supplied by OMIM, Apr 2009]. CCDS Note: The coding region has been updated to start at a downstream in-frame start codon that is supported by conservation data. ##Evidence-Data-START## Transcript exon combination :: BC066294.1, AF139543.1 [ECO:0000332] RNAseq introns :: single sample supports all introns SAMEA1968968, SAMEA2148093 [ECO:0000348] ##Evidence-Data-END## ##RefSeq-Attributes-START## CDS uses downstream in-frame AUG :: upstream AUG and CDS extension is not conserved RefSeq Select criteria :: based on conservation, expression ##RefSeq-Attributes-END##
Transcript (Including UTRs)
   Position: hg19 chr10:30,900,708-30,918,647 Size: 17,940 Total Exon Count: 5 Strand: -
Coding Region
   Position: hg19 chr10:30,900,884-30,918,634 Size: 17,751 Coding Exon Count: 5 

Page IndexSequence and LinksGenetic AssociationsMalaCardsCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesmRNA Descriptions
Other NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr10:30,900,708-30,918,647)mRNA (may differ from genome)Protein (194 aa)
Gene SorterGenome BrowserOther Species FASTATable SchemaBioGPSCGAP
EnsemblEntrez GeneExonPrimerGeneCardsGeneNetworkHGNC
LynxMGIOMIMPubMedStanford SOURCETreefam
UniProtKB

-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): LYZL2
CDC HuGE Published Literature: LYZL2
Positive Disease Associations: Macular Degeneration
Related Studies:
  1. Macular Degeneration
    , , . [PubMed 0]

-  MalaCards Disease Associations
  MalaCards Gene Search: LYZL2
Diseases sorted by gene-association score: dental caries (4)

-  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: 65.04 RPKM in Testis
Total median expression: 65.04 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 -38.40176-0.218 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:
PF00062 - C-type lysozyme/alpha-lactalbumin family

SCOP Domains:
53955 - Lysozyme-like

ModBase Predicted Comparative 3D Structure on Q7Z4W2-2
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 orthologGenome BrowserNo orthologNo ortholog
Gene Details  Gene Details  
Gene Sorter  Gene Sorter  
   FlyBase  
   Protein Sequence  
   Alignment  

-  Descriptions from all associated GenBank mRNAs
  BC066294 - Homo sapiens lysozyme-like 2, mRNA (cDNA clone MGC:86984 IMAGE:4374284), complete cds.
JD236669 - Sequence 217693 from Patent EP1572962.
JD236670 - Sequence 217694 from Patent EP1572962.
AF139543 - Homo sapiens lysozyme-2 mRNA, complete cds.
JD415294 - Sequence 396318 from Patent EP1572962.
JD186668 - Sequence 167692 from Patent EP1572962.
JD449592 - Sequence 430616 from Patent EP1572962.
HQ448509 - Synthetic construct Homo sapiens clone IMAGE:100071943; CCSB011022_01 lysozyme-like 2 (LYZL2) gene, encodes complete protein.
KJ900065 - Synthetic construct Homo sapiens clone ccsbBroadEn_09459 LYZL2 gene, encodes complete protein.

-  Other Names for This Gene
  Alternate Gene Symbols: NM_183058, NP_898881, Q7Z4W2-2
UCSC ID: uc001ivk.3
RefSeq Accession: NM_183058
Protein: Q7Z4W2-2, splice isoform of Q7Z4W2 CCDS: CCDS7167.2

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_183058.2
exon count: 5CDS single in 3' UTR: no RNA size: 777
ORF size: 585CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1219.00frame shift in genome: no % Coverage: 99.61
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.