Human Gene CD44 (ENST00000428726.8_9) from GENCODE V47lift37
Description: CD44 molecule (Indian blood group), transcript variant 1 (from RefSeq NM_000610.4)
Gencode Transcript: ENST00000428726.8_9
Gencode Gene: ENSG00000026508.21_19
Transcript (Including UTRs)
Position: hg19 chr11:35,160,718-35,253,949 Size: 93,232 Total Exon Count: 18 Strand: +
Coding Region
Position: hg19 chr11:35,160,851-35,250,880 Size: 90,030 Coding Exon Count: 18
Data last updated at UCSC: 2024-08-22 23:36:26
Sequence and Links to Tools and Databases
Comments and Description Text from UniProtKB
ID: CD44_HUMAN
DESCRIPTION: RecName: Full=CD44 antigen; AltName: Full=CDw44; AltName: Full=Epican; AltName: Full=Extracellular matrix receptor III; Short=ECMR-III; AltName: Full=GP90 lymphocyte homing/adhesion receptor; AltName: Full=HUTCH-I; AltName: Full=Heparan sulfate proteoglycan; AltName: Full=Hermes antigen; AltName: Full=Hyaluronate receptor; AltName: Full=Phagocytic glycoprotein 1; Short=PGP-1; AltName: Full=Phagocytic glycoprotein I; Short=PGP-I; AltName: CD_antigen=CD44; Flags: Precursor;
FUNCTION: Receptor for hyaluronic acid (HA). Mediates cell-cell and cell-matrix interactions through its affinity for HA, and possibly also through its affinity for other ligands such as osteopontin, collagens, and matrix metalloproteinases (MMPs). Adhesion with HA plays an important role in cell migration, tumor growth and progression. Also involved in lymphocyte activation, recirculation and homing, and in hematopoiesis. Altered expression or dysfunction causes numerous pathogenic phenotypes. Great protein heterogeneity due to numerous alternative splicing and post-translational modification events.SUBUNIT: Interacts with PKN2 (By similarity). Interacts with HA, as well as other glycosaminoglycans, collagen, laminin, and fibronectin via its N-terminal segment. Interacts with ANK, the ERM proteins (VIL2, RDX and MSN), and NF2 via its C-terminal segment.INTERACTION: P18011:ipaB (xeno); NbExp=4; IntAct=EBI-490245, EBI-490239; Q9UPY5:SLC7A11; NbExp=4; IntAct=EBI-490245, EBI-3843348;SUBCELLULAR LOCATION: Membrane; Single-pass type I membrane protein. Note=Colocalizes with actin in membrane protrusions at wounding edges (By similarity).TISSUE SPECIFICITY: Isoform 10 (epithelial isoform) is expressed by cells of epithelium and highly expressed by carcinomas. Expression is repressed in neuroblastoma cells.DOMAIN: The lectin-like LINK domain is responsible for hyaluronan binding (By similarity).PTM: Proteolytically cleaved in the extracellular matrix by specific proteinases (possibly MMPs) in several cell lines and tumors.PTM: N- and O-glycosylated. O-glycosylation contains more-or-less- sulfated chondroitin sulfate glycans, whose number may affect the accessibility of specific proteinases to their cleavage site(s). It is uncertain if O-glycosylation occurs on Thr-637 or Thr-638.PTM: Phosphorylated; activation of PKC results in the dephosphorylation of Ser-706 (constitutive phosphorylation site), and the phosphorylation of Ser-672.POLYMORPHISM: CD44 is responsible for the Indian blood group system. The molecular basis of the In(A)=In1/In(B)=In2 blood group antigens is a single variation in position 46; In(B), the most frequent allele, has Arg-46.SIMILARITY: Contains 1 Link domain.WEB RESOURCE: Name=dbRBC/BGMUT; Note=Blood group antigen gene mutation database; URL="http://www.ncbi.nlm.nih.gov/gv/mhc/xslcgi.cgi?cmd=bgmut/systems_info&system=indian";WEB RESOURCE: Name=Wikipedia; Note=CD44 entry; URL="http://en.wikipedia.org/wiki/CD44";
Primer design for this transcript
MalaCards Disease Associations
MalaCards Gene Search: CD44
Diseases sorted by gene-association score: superficial keratitis (18), lichen sclerosus (17), intraductal papilloma (15), hodgkin's lymphoma, lymphocytic-histiocytic predominance (13), acute monoblastic leukemia (13), warthin tumor (12), larynx cancer (12), skin atrophy (11), congenital dyserythropoietic anemia (11), prostate leiomyosarcoma (10), tarsal-carpal coalition syndrome (8), stomach cancer (8), colorectal cancer (8), deafness, autosomal recessive 51 (7), inflammatory bowel disease 16 (7), ovarian clear cell carcinoma (7), cd3zeta deficiency (7), gastric adenosquamous carcinoma (7), breast adenoma (7), fibrochondrogenesis (7), squamous cell carcinoma, head and neck (7), rheumatoid vasculitis (7), mast cell disease (6), gastrointestinal neuroendocrine tumor (6), breast ductal carcinoma (6), omodysplasia (6), tongue cancer (6), schwartz-jampel syndrome, type 1 (6), hydrocele (6), mucinoses (5), bladder cancer, somatic (5), lung cancer (5), small intestinal adenocarcinoma (5), breast giant fibroadenoma (5), colon carcinoma in situ (5), spinal cord astrocytoma (4), brain germinoma (4), hepatocellular carcinoma (4), cerebral primitive neuroectodermal tumor (4), transitional cell carcinoma (4), gastric adenocarcinoma (4), endometrial cancer (4), ovarian cancer, somatic (4), breast cancer (4), multiple myeloma (3), glomangioma (3), streptococcal meningitis (3), chandler syndrome (3), juvenile pilocytic astrocytoma (3), neuroblastoma (3), oral squamous cell carcinoma (3), renal cell carcinoma (3), pancreatic cancer (3), prostate cancer (3), brain cancer (3), cervical cancer, somatic (2), esophageal cancer (2), lymphoma, non-hodgkin (2), eye disease (2), gastrointestinal system cancer (1), pancreas adenocarcinoma (1), cell type cancer (1), reproductive organ cancer (1)
Comparative Toxicogenomics Database (CTD)
Common Gene Haplotype Alleles
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RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
Microarray Expression Data
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mRNA Secondary Structure of 3' and 5' UTRs
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 IPR016186 - C-type_lectin-like
IPR016187 - C-type_lectin_fold
IPR001231 - CD44_antigen
IPR000538 - Link
Pfam Domains: PF00193 - Extracellular link domain
SCOP Domains: 56436 - C-type lectin-like
Protein Data Bank (PDB) 3-D Structure
ModBase Predicted Comparative 3D Structure on P16070
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.
Gene Ontology (GO) Annotations with Structured Vocabulary
Descriptions from all associated GenBank mRNAs
LF211833 - JP 2014500723-A/19336: Polycomb-Associated Non-Coding RNAs.AL832642 - Homo sapiens mRNA; cDNA DKFZp451K1918 (from clone DKFZp451K1918); complete cds.LF205796 - JP 2014500723-A/13299: Polycomb-Associated Non-Coding RNAs.AK297776 - Homo sapiens cDNA FLJ52702 complete cds, highly similar to Homo sapiens CD44 antigen (homing function and Indian blood group system) (CD44), transcript variant 4, mRNA.D28447 - Homo sapiens mRNA for CD44 antigen, 5'UTR region.X66733 - H.sapiens mRNA for epican.X55150 - Human mRNA for CD44E (epithelial form).AJ251595 - Homo sapiens mRNA for transmembrane glycoprotein (CD44 gene).BC004372 - Homo sapiens CD44 molecule (Indian blood group), mRNA (cDNA clone MGC:10468 IMAGE:3638681), complete cds.BC052287 - Homo sapiens CD44 molecule (Indian blood group), mRNA (cDNA clone IMAGE:5428516), complete cds.AY101193 - Homo sapiens CD44 antigen (CD44) mRNA, complete cds.BC067348 - Homo sapiens CD44 molecule (Indian blood group), mRNA (cDNA clone IMAGE:4842331), complete cds.AY101192 - Homo sapiens CD44 antigen (CD44) mRNA, complete cds.X56794 - H.sapiens CD44R mRNA.M24915 - Human CDw44 antigen, complete cds.JD126141 - Sequence 107165 from Patent EP1572962.U40373 - Human cell surface glycoprotein CD44 mRNA, complete cds.S66400 - CD44=CD44SP {alternatively spliced} [human, breast carcinoma cell line MCF-7, mRNA Partial, 1586 nt].JD149545 - Sequence 130569 from Patent EP1572962.M59040 - Human cell adhesion molecule (CD44) mRNA, complete cds.AF098641 - Homo sapiens CD44 isoform RC (CD44) mRNA, complete cds.EF581837 - Homo sapiens CD44 variant mRNA, complete cds, alternatively spliced.AB384769 - Synthetic construct DNA, clone: pF1KB3247, Homo sapiens CD44 gene for CD44 antigen precursor, complete cds, without stop codon, in Flexi system.CU678692 - Synthetic construct Homo sapiens gateway clone IMAGE:100017774 5' read CD44 mRNA.FJ216964 - Homo sapiens CD44 mRNA, complete cds, alternatively spliced.AK290424 - Homo sapiens cDNA FLJ76654 complete cds, highly similar to Homo sapiens CD44 antigen (homing function and Indian blood group system) (CD44), transcript variant 4, mRNA.M25078 - Human Hermes antigen gp90 homing receptor mRNA, 3' end.KJ896569 - Synthetic construct Homo sapiens clone ccsbBroadEn_05963 CD44 gene, encodes complete protein.KR709962 - Synthetic construct Homo sapiens clone CCSBHm_00008538 CD44 (CD44) mRNA, encodes complete protein.KR709963 - Synthetic construct Homo sapiens clone CCSBHm_00008540 CD44 (CD44) mRNA, encodes complete protein.LF348328 - JP 2014500723-A/155831: Polycomb-Associated Non-Coding RNAs.AK129808 - Homo sapiens cDNA FLJ26297 fis, clone DMC07218, highly similar to Homo sapiens CD44 antigen (homing function and Indian blood group system) (CD44).JC743452 - Sequence 7 from Patent EP2725103.LF348325 - JP 2014500723-A/155828: Polycomb-Associated Non-Coding RNAs.S82326 - CD44=cell-cell and cell-matrix adhesion interaction glycoprotein isoform {alternatively spliced, exon 4-exon 13 junction region} [human, papillary thyroid carcinoma and contralateral thyroid tissue, thyroid carcinoma patient, mRNA Mutant, 530 nt].AK304467 - Homo sapiens cDNA FLJ60041 complete cds, highly similar to CD44 antigen precursor.AK307707 - Homo sapiens cDNA, FLJ97655.LF348324 - JP 2014500723-A/155827: Polycomb-Associated Non-Coding RNAs.X55938 - Human mRNA for CD44E core protein.M83324 - Human cell surface glycoprotein CD44 mRNA, (variant B) exon 1.M83325 - Human cell surface glycoprotein CD44 mRNA, (variant C) exons 1 and 2.M83326 - Human cell surface glycoprotein CD44 mRNA, (variant D) exon 1, 2, and 3.M83327 - Human cell surface glycoprotein CD44 mRNA, (variant E) exons 1, 2, 3, and 4.M83328 - Human cell surface glycoprotein CD44 mRNA, (variant F) exons 1, 2, 3, and 5.AK123567 - Homo sapiens cDNA FLJ41573 fis, clone CTONG2009768.X62739 - H.sapiens mRNA for variant CD44.LF348321 - JP 2014500723-A/155824: Polycomb-Associated Non-Coding RNAs.LF348319 - JP 2014500723-A/155822: Polycomb-Associated Non-Coding RNAs.LF348318 - JP 2014500723-A/155821: Polycomb-Associated Non-Coding RNAs.JD294688 - Sequence 275712 from Patent EP1572962.LF348317 - JP 2014500723-A/155820: Polycomb-Associated Non-Coding RNAs.JD254953 - Sequence 235977 from Patent EP1572962.LF348316 - JP 2014500723-A/155819: Polycomb-Associated Non-Coding RNAs.JD516638 - Sequence 497662 from Patent EP1572962.FW573328 - JP 2010529847-A/49: Oligonucleotides for modulation of target RNA activity.JD039896 - Sequence 20920 from Patent EP1572962.JD417836 - Sequence 398860 from Patent EP1572962.JD449579 - Sequence 430603 from Patent EP1572962.LF348315 - JP 2014500723-A/155818: Polycomb-Associated Non-Coding RNAs.LF348314 - JP 2014500723-A/155817: Polycomb-Associated Non-Coding RNAs.AK127622 - Homo sapiens cDNA FLJ45720 fis, clone HCASM2000363.LF348313 - JP 2014500723-A/155816: Polycomb-Associated Non-Coding RNAs.LF348312 - JP 2014500723-A/155815: Polycomb-Associated Non-Coding RNAs.AB073901 - Homo sapiens primary neuroblastoma cDNA, clone:Nbla03779, full insert sequence.FW573327 - JP 2010529847-A/48: Oligonucleotides for modulation of target RNA activity.LF348311 - JP 2014500723-A/155814: Polycomb-Associated Non-Coding RNAs.LF348310 - JP 2014500723-A/155813: Polycomb-Associated Non-Coding RNAs.FW573329 - JP 2010529847-A/50: Oligonucleotides for modulation of target RNA activity.FW573326 - JP 2010529847-A/47: Oligonucleotides for modulation of target RNA activity.LF348309 - JP 2014500723-A/155812: Polycomb-Associated Non-Coding RNAs.LQ969649 - Sequence 133 from Patent WO2014198843.LQ969633 - Sequence 117 from Patent WO2014198843.LQ969635 - Sequence 119 from Patent WO2014198843.LQ969636 - Sequence 120 from Patent WO2014198843.LQ969637 - Sequence 121 from Patent WO2014198843.LQ969638 - Sequence 122 from Patent WO2014198843.LQ969639 - Sequence 123 from Patent WO2014198843.LQ969641 - Sequence 125 from Patent WO2014198843.LQ969642 - Sequence 126 from Patent WO2014198843.LQ969644 - Sequence 128 from Patent WO2014198843.LQ969646 - Sequence 130 from Patent WO2014198843.LQ969647 - Sequence 131 from Patent WO2014198843.LQ969648 - Sequence 132 from Patent WO2014198843.LQ969650 - Sequence 134 from Patent WO2014198843.LQ969643 - Sequence 127 from Patent WO2014198843.LQ969645 - Sequence 129 from Patent WO2014198843.LQ969634 - Sequence 118 from Patent WO2014198843.LQ969640 - Sequence 124 from Patent WO2014198843.LQ969651 - Sequence 135 from Patent WO2014198843.LQ969652 - Sequence 136 from Patent WO2014198843.LQ969653 - Sequence 137 from Patent WO2014198843.LQ969654 - Sequence 138 from Patent WO2014198843.LQ969655 - Sequence 139 from Patent WO2014198843.LQ969656 - Sequence 140 from Patent WO2014198843.LQ969657 - Sequence 141 from Patent WO2014198843.LQ969658 - Sequence 142 from Patent WO2014198843.LQ969659 - Sequence 143 from Patent WO2014198843.LQ969660 - Sequence 144 from Patent WO2014198843.LQ969661 - Sequence 145 from Patent WO2014198843.LQ969662 - Sequence 146 from Patent WO2014198843.LQ969663 - Sequence 147 from Patent WO2014198843.LQ969664 - Sequence 148 from Patent WO2014198843.LQ969665 - Sequence 149 from Patent WO2014198843.LQ969666 - Sequence 150 from Patent WO2014198843.MA583905 - JP 2018138019-A/155831: Polycomb-Associated Non-Coding RNAs.MA583902 - JP 2018138019-A/155828: Polycomb-Associated Non-Coding RNAs.MA583901 - JP 2018138019-A/155827: Polycomb-Associated Non-Coding RNAs.MA583898 - JP 2018138019-A/155824: Polycomb-Associated Non-Coding RNAs.MA583896 - JP 2018138019-A/155822: Polycomb-Associated Non-Coding RNAs.MA583895 - JP 2018138019-A/155821: Polycomb-Associated Non-Coding RNAs.MA583894 - JP 2018138019-A/155820: Polycomb-Associated Non-Coding RNAs.MA583893 - JP 2018138019-A/155819: Polycomb-Associated Non-Coding RNAs.MA583892 - JP 2018138019-A/155818: Polycomb-Associated Non-Coding RNAs.MA583891 - JP 2018138019-A/155817: Polycomb-Associated Non-Coding RNAs.MA583890 - JP 2018138019-A/155816: Polycomb-Associated Non-Coding RNAs.MA583889 - JP 2018138019-A/155815: Polycomb-Associated Non-Coding RNAs.MA583888 - JP 2018138019-A/155814: Polycomb-Associated Non-Coding RNAs.MA583887 - JP 2018138019-A/155813: Polycomb-Associated Non-Coding RNAs.MA583886 - JP 2018138019-A/155812: Polycomb-Associated Non-Coding RNAs.MA447410 - JP 2018138019-A/19336: Polycomb-Associated Non-Coding RNAs.MA441373 - JP 2018138019-A/13299: Polycomb-Associated Non-Coding RNAs.
Biochemical and Signaling Pathways
Other Names for This Gene
Alternate Gene Symbols: A5YRN9, B6EAT9, CD44_HUMAN, D3DR12, D3DR13, ENST00000428726.1, ENST00000428726.2, ENST00000428726.3, ENST00000428726.4, ENST00000428726.5, ENST00000428726.6, ENST00000428726.7, LHR, MDU2, MDU3, MIC4, NM_000610, O95370, P16070, P22511, Q04858, Q13419, Q13957, Q13958, Q13959, Q13960, Q13961, Q13967, Q13968, Q13980, Q15861, Q16064, Q16065, Q16066, Q16208, Q16522, Q86T72, Q86Z27, Q8N694, Q92493, Q96J24, Q9H5A5, Q9UC28, Q9UC29, Q9UC30, Q9UCB0, Q9UJ36, uc319xrm.1, uc319xrm.2UCSC ID: ENST00000428726.8_9RefSeq Accession: NM_000610.4
Protein: P16070
(aka CD44_HUMAN)
Gene Model Information
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for a detailed description of the fields of the table above.
Methods, Credits, and Use Restrictions
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for details on how this gene model was made and data restrictions if any.