Human Gene CMTM7 (uc003cey.1)
  Description: Homo sapiens CKLF-like MARVEL transmembrane domain containing 7 (CMTM7), transcript variant 1, mRNA.
RefSeq Summary (NM_138410): This gene belongs to the chemokine-like factor gene superfamily, a novel family that is similar to the chemokine and transmembrane 4 superfamilies. This gene is one of several chemokine-like factor genes located in a cluster on chromosome 3. This gene acts as a tumor suppressor that regulates G1/S transition in the cell cycle, and epidermal growth factor receptor/protein kinase B signaling during tumor pathogenesis. Alternative splicing results in multiple transcript variants encoding different isoforms. [provided by RefSeq, Feb 2016].
Transcript (Including UTRs)
   Position: hg19 chr3:32,433,163-32,496,333 Size: 63,171 Total Exon Count: 5 Strand: +
Coding Region
   Position: hg19 chr3:32,433,399-32,495,746 Size: 62,348 Coding Exon Count: 5 

Page IndexSequence and LinksUniProtKB CommentsPrimersGenetic AssociationsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr3:32,433,163-32,496,333)mRNA (may differ from genome)Protein (175 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
neXtProtOMIMPubMedTreefamUniProtKBWikipedia
BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: CKLF7_HUMAN
DESCRIPTION: RecName: Full=CKLF-like MARVEL transmembrane domain-containing protein 7; AltName: Full=Chemokine-like factor superfamily member 7;
SUBCELLULAR LOCATION: Membrane; Multi-pass membrane protein.
TISSUE SPECIFICITY: Highly expressed in leukocytes.
SIMILARITY: Belongs to the chemokine-like factor family.
SIMILARITY: Contains 1 MARVEL 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


-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): CMTM7
CDC HuGE Published Literature: CMTM7
Positive Disease Associations: Erythrocyte Count , Mortality
Related Studies:
  1. Erythrocyte Count
    , , . [PubMed 0]
  2. Mortality
    Alanna C Morrison et al. Circulation. Cardiovascular genetics 2010, Genomic variation associated with mortality among adults of European and African ancestry with heart failure: the cohorts for heart and aging research in genomic epidemiology consortium., Circulation. Cardiovascular genetics. [PubMed 20400778]
    This study identified a novel locus associated with all-cause mortality among individuals of European ancestry with HF. This finding warrants additional investigation, including replication, in other studies of HF.

-  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: 24.79 RPKM in Spleen
Total median expression: 244.30 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 -124.90236-0.529 Picture PostScript Text
3' UTR -200.60587-0.342 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
IPR008253 - Marvel
IPR021128 - MARVEL-like_dom

Pfam Domains:
PF01284 - Membrane-associating domain

ModBase Predicted Comparative 3D Structure on Q96FZ5
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 orthologGenome BrowserNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
  Ensembl   
  Protein Sequence   
  Alignment   

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005125 cytokine activity

Biological Process:
GO:0002337 B-1a B cell differentiation
GO:0006935 chemotaxis
GO:0010469 regulation of receptor activity

Cellular Component:
GO:0005615 extracellular space
GO:0016020 membrane
GO:0016021 integral component of membrane


-  Descriptions from all associated GenBank mRNAs
  AF479263 - Homo sapiens chemokine-like factor super family member 7 (CKLFSF7) mRNA, complete cds.
AL832450 - Homo sapiens mRNA; cDNA DKFZp434I2129 (from clone DKFZp434I2129).
BC010116 - Homo sapiens CKLF-like MARVEL transmembrane domain containing 7, mRNA (cDNA clone MGC:19762 IMAGE:3636045), complete cds.
JD476162 - Sequence 457186 from Patent EP1572962.
AY174113 - Homo sapiens KSS splice variant b mRNA, complete cds; alternatively spliced.
DQ132881 - Homo sapiens chemokine-like factor super family member 7 variant 2 (CKLFSF7) mRNA, complete cds.
AK308878 - Homo sapiens cDNA, FLJ98919.
AK055554 - Homo sapiens cDNA FLJ30992 fis, clone HLUNG1000053.
JD096848 - Sequence 77872 from Patent EP1572962.
JD146174 - Sequence 127198 from Patent EP1572962.
JD241850 - Sequence 222874 from Patent EP1572962.
JD292654 - Sequence 273678 from Patent EP1572962.
JD064232 - Sequence 45256 from Patent EP1572962.
JD280453 - Sequence 261477 from Patent EP1572962.
JD119002 - Sequence 100026 from Patent EP1572962.
JD039026 - Sequence 20050 from Patent EP1572962.
JD525347 - Sequence 506371 from Patent EP1572962.
JD520682 - Sequence 501706 from Patent EP1572962.
JD395864 - Sequence 376888 from Patent EP1572962.
JD214319 - Sequence 195343 from Patent EP1572962.
JD168444 - Sequence 149468 from Patent EP1572962.
JD506895 - Sequence 487919 from Patent EP1572962.
JD321598 - Sequence 302622 from Patent EP1572962.
JD520043 - Sequence 501067 from Patent EP1572962.
JD484185 - Sequence 465209 from Patent EP1572962.
JD487147 - Sequence 468171 from Patent EP1572962.
JD232667 - Sequence 213691 from Patent EP1572962.
JD525845 - Sequence 506869 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: CKLF7_HUMAN, CKLFSF7, NM_138410, NP_612419, Q5VLK1, Q96FZ5
UCSC ID: uc003cey.1
RefSeq Accession: NM_138410
Protein: Q96FZ5 (aka CKLF7_HUMAN or CLF7_HUMAN)
CCDS: CCDS33730.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_138410.2
exon count: 5CDS single in 3' UTR: no RNA size: 1369
ORF size: 528CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1256.00frame shift in genome: no % Coverage: 98.69
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.