Human Gene CD7 (uc002kel.1)
  Description: Homo sapiens CD7 molecule (CD7), mRNA.
RefSeq Summary (NM_006137): This gene encodes a transmembrane protein which is a member of the immunoglobulin superfamily. This protein is found on thymocytes and mature T cells. It plays an essential role in T-cell interactions and also in T-cell/B-cell interaction during early lymphoid development. [provided by RefSeq, Jul 2008].
Transcript (Including UTRs)
   Position: hg19 chr17:80,272,746-80,275,480 Size: 2,735 Total Exon Count: 4 Strand: -
Coding Region
   Position: hg19 chr17:80,273,197-80,275,371 Size: 2,175 Coding Exon Count: 4 

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

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr17:80,272,746-80,275,480)mRNA (may differ from genome)Protein (240 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMalacards
MGIneXtProtOMIMPubMedTreefamUniProtKB
WikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: CD7_HUMAN
DESCRIPTION: RecName: Full=T-cell antigen CD7; AltName: Full=GP40; AltName: Full=T-cell leukemia antigen; AltName: Full=T-cell surface antigen Leu-9; AltName: Full=TP41; AltName: CD_antigen=CD7; Flags: Precursor;
FUNCTION: Not yet known.
SUBUNIT: Interacts with SECTM1.
SUBCELLULAR LOCATION: Membrane; Single-pass type I membrane protein.
SIMILARITY: Contains 1 Ig-like (immunoglobulin-like) 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


-  MalaCards Disease Associations
  MalaCards Gene Search: CD7
Diseases sorted by gene-association score: pityriasis lichenoides et varioliformis acuta (9), t-cell leukemia (8), mycosis fungoides (6), pityriasis lichenoides (4), acute t cell leukemia (4), adult t-cell leukemia (3), sezary's disease (3), retinitis pigmentosa 72 (3), hepatosplenic t-cell lymphoma (3), leukemia, acute lymphoblastic (2), inflammatory bowel disease 16 (2), t-cell prolymphocytic leukemia (2), retinitis pigmentosa-50 (2), colon lymphoma (1), leukemia, acute myeloid (1), follicular mucinosis (1), aleukemic leukemia cutis (1), thymic dysplasia (1), small intestine lymphoma (1), chronic nk-cell lymphocytosis (1), retinitis pigmentosa 26 (1), exanthema subitum (1)

-  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: 29.00 RPKM in Whole Blood
Total median expression: 95.73 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 -49.20109-0.451 Picture PostScript Text
3' UTR -174.08451-0.386 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
IPR007110 - Ig-like
IPR013783 - Ig-like_fold
IPR003599 - Ig_sub
IPR013106 - Ig_V-set

Pfam Domains:
PF07686 - Immunoglobulin V-set domain

SCOP Domains:
48726 - Immunoglobulin

ModBase Predicted Comparative 3D Structure on P09564
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     
      
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0038023 signaling receptor activity

Biological Process:
GO:0002250 adaptive immune response
GO:0002376 immune system process
GO:0006955 immune response
GO:0007169 transmembrane receptor protein tyrosine kinase signaling pathway
GO:0042110 T cell activation

Cellular Component:
GO:0005886 plasma membrane
GO:0016020 membrane
GO:0016021 integral component of membrane


-  Descriptions from all associated GenBank mRNAs
  AK310558 - Homo sapiens cDNA, FLJ17600.
BC009293 - Homo sapiens CD7 molecule, mRNA (cDNA clone MGC:16622 IMAGE:4120480), complete cds.
BC013297 - Homo sapiens CD7 molecule, mRNA (cDNA clone MGC:3929 IMAGE:3529600), complete cds.
AY935534 - Homo sapiens clone 18 CD7 antigen mRNA, complete cds.
AY935535 - Homo sapiens clone 14 CD7 antigen mRNA, complete cds.
AY935536 - Homo sapiens clone 32 CD7 antigen mRNA, complete cds.
AY935537 - Homo sapiens clone 5240 CD7 antigen mRNA, complete cds.
LP896085 - Sequence 949 from Patent EP3253886.
X06180 - Human mRNA for CD7 antigen (gp40).
JD209987 - Sequence 191011 from Patent EP1572962.
JD390385 - Sequence 371409 from Patent EP1572962.
AK223465 - Homo sapiens mRNA for CD7 antigen precursor variant, clone: FCC117E08.
DQ890740 - Synthetic construct clone IMAGE:100003370; FLH165592.01X; RZPDo839E04160D CD7 molecule (CD7) gene, encodes complete protein.
DQ892590 - Synthetic construct clone IMAGE:100005220; FLH187870.01X; RZPDo839D12150D CD7 molecule (CD7) gene, encodes complete protein.
DQ893911 - Synthetic construct Homo sapiens clone IMAGE:100008371; FLH165588.01L; RZPDo839E04159D CD7 molecule (CD7) gene, encodes complete protein.
DQ895810 - Synthetic construct Homo sapiens clone IMAGE:100010270; FLH187866.01L; RZPDo839D12149D CD7 molecule (CD7) gene, encodes complete protein.
KJ890854 - Synthetic construct Homo sapiens clone ccsbBroadEn_00248 CD7 gene, encodes complete protein.
BT006696 - Homo sapiens CD7 antigen (p41) mRNA, complete cds.
AK310061 - Homo sapiens cDNA, FLJ17103.
AK298096 - Homo sapiens cDNA FLJ57491 complete cds, moderately similar to T-cell antigen CD7 precursor.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa04640 - Hematopoietic cell lineage

BioCarta from NCI Cancer Genome Anatomy Project
h_dcPathway - Dendritic cells in regulating TH1 and TH2 Development

-  Other Names for This Gene
  Alternate Gene Symbols: CD7_HUMAN, NM_006137, NP_006128, P09564
UCSC ID: uc002kel.1
RefSeq Accession: NM_006137
Protein: P09564 (aka CD7_HUMAN)
CCDS: CCDS11807.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_006137.6
exon count: 4CDS single in 3' UTR: no RNA size: 1318
ORF size: 723CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1326.00frame shift in genome: no % Coverage: 97.34
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.