Human Gene FERMT3 (ENST00000345728.10_10) from GENCODE V47lift37
  Description: FERM domain containing kindlin 3, transcript variant URP2SF (from RefSeq NM_031471.6)
Gencode Transcript: ENST00000345728.10_10
Gencode Gene: ENSG00000149781.14_17
Transcript (Including UTRs)
   Position: hg19 chr11:63,974,193-63,991,363 Size: 17,171 Total Exon Count: 15 Strand: +
Coding Region
   Position: hg19 chr11:63,974,837-63,990,964 Size: 16,128 Coding Exon Count: 14 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr11:63,974,193-63,991,363)mRNA (may differ from genome)Protein (663 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
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UniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: URP2_HUMAN
DESCRIPTION: RecName: Full=Fermitin family homolog 3; AltName: Full=Kindlin-3; AltName: Full=MIG2-like protein; AltName: Full=Unc-112-related protein 2;
FUNCTION: Plays a central role in cell adhesion in hematopoietic cells. Acts by activating the integrin beta-1-3 (ITGB1, ITGB2 and ITGB3). Required for integrin-mediated platelet adhesion and leukocyte adhesion to endothelial cells. Required for activation of integrin beta-2 (ITGB2) in polymorphonuclear granulocytes (PMNs) (By similarity).
FUNCTION: Isoform 2 may act as a repressor of NF-kappa-B and apoptosis.
SUBUNIT: Interacts with ITGB1, ITGB2 and ITGB3 (via cytoplasmic tails) (By similarity).
SUBCELLULAR LOCATION: Cell projection, podosome (By similarity). Note=Present in the F-actin surrounding ring structure of podosomes, which are specialized adhesion structures of hematopoietic cells (By similarity).
TISSUE SPECIFICITY: Highly expressed in lymph node. Expressed in thymus, spleen and leukocytes. Weakly expressed in placenta, small intestine, stomach, testis and lung. Overexpressed in B-cell malignancies.
DOMAIN: The FERM domain is not correctly detected by PROSITE or Pfam techniques because it contains the insertion of a PH domain.
DISEASE: Defects in FERMT3 are the cause of leukocyte adhesion deficiency type 3 (LAD3) [MIM:612840]; also called leukocyte adhesion deficiency 1 variant (LAD1v). LAD3 is a rare syndrome characterized by infections without pus formation in the presence of a leukocytosis combined with a Glanzmann-type bleeding disorder, resulting from a hematopoietic defect in integrin activation. Symptoms arise from an inability to activate the integrins expressed on hematopoietic cells, including platelets and leukocytes.
SIMILARITY: Belongs to the kindlin family.
SIMILARITY: Contains 1 FERM domain.
SIMILARITY: Contains 1 PH 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: FERMT3
Diseases sorted by gene-association score: leukocyte adhesion deficiency, type iii* (1377), leukocyte adhesion deficiency (47), kindler syndrome (13)
* = Manually curated disease association

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  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: 115.49 RPKM in Whole Blood
Total median expression: 488.22 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 -29.90108-0.277 Picture PostScript Text
3' UTR -127.20399-0.319 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
IPR019749 - Band_41_domain
IPR019748 - FERM_central
IPR011993 - PH_like_dom
IPR001849 - Pleckstrin_homology

Pfam Domains:
PF00169 - PH domain
PF00373 - FERM central domain
PF18124 - Kindlin-2 N-terminal domain

SCOP Domains:
47031 - Second domain of FERM
50729 - PH domain-like
54236 - Ubiquitin-like

Protein Data Bank (PDB) 3-D Structure
MuPIT help
2YS3 - NMR MuPIT


ModBase Predicted Comparative 3D Structure on Q86UX7
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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 DetailsGene Details    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005178 integrin binding

Biological Process:
GO:0002576 platelet degranulation
GO:0007155 cell adhesion
GO:0007159 leukocyte cell-cell adhesion
GO:0007229 integrin-mediated signaling pathway
GO:0030335 positive regulation of cell migration
GO:0033622 integrin activation
GO:0033632 regulation of cell-cell adhesion mediated by integrin
GO:0034446 substrate adhesion-dependent cell spreading
GO:0070527 platelet aggregation

Cellular Component:
GO:0002102 podosome
GO:0005576 extracellular region
GO:0016020 membrane
GO:0030054 cell junction
GO:0031093 platelet alpha granule lumen
GO:0042995 cell projection
GO:0070062 extracellular exosome


-  Descriptions from all associated GenBank mRNAs
  AY093951 - Homo sapiens UNC-112 related protein 2 short form URP2SF mRNA, complete cds.
AY093952 - Homo sapiens UNC-112 related protein 2 long form URP2LF mRNA, complete cds.
AK093719 - Homo sapiens cDNA FLJ36400 fis, clone THYMU2009792, moderately similar to Mitogen inducible gene mig-2.
AX748276 - Sequence 1801 from Patent EP1308459.
BC004347 - Homo sapiens fermitin family homolog 3 (Drosophila), mRNA (cDNA clone MGC:10966 IMAGE:3634032), complete cds.
BC013366 - Homo sapiens fermitin family homolog 3 (Drosophila), mRNA (cDNA clone MGC:16227 IMAGE:3677274), complete cds.
BC015584 - Homo sapiens fermitin family homolog 3 (Drosophila), mRNA (cDNA clone MGC:23286 IMAGE:4637808), complete cds.
JD483298 - Sequence 464322 from Patent EP1572962.
CU678676 - Synthetic construct Homo sapiens gateway clone IMAGE:100020384 5' read URP2 mRNA.
KJ899715 - Synthetic construct Homo sapiens clone ccsbBroadEn_09109 FERMT3 gene, encodes complete protein.
L25343 - Human erythroleukemic cells K562 mRNA fragment.
JD102604 - Sequence 83628 from Patent EP1572962.
JD060347 - Sequence 41371 from Patent EP1572962.
JD072987 - Sequence 54011 from Patent EP1572962.
JD190724 - Sequence 171748 from Patent EP1572962.
JD227739 - Sequence 208763 from Patent EP1572962.
JD105035 - Sequence 86059 from Patent EP1572962.
JD092238 - Sequence 73262 from Patent EP1572962.
JD099961 - Sequence 80985 from Patent EP1572962.
JD098243 - Sequence 79267 from Patent EP1572962.
JD366855 - Sequence 347879 from Patent EP1572962.
JD120936 - Sequence 101960 from Patent EP1572962.
JD452996 - Sequence 434020 from Patent EP1572962.
JD158623 - Sequence 139647 from Patent EP1572962.
JD239609 - Sequence 220633 from Patent EP1572962.
JD218960 - Sequence 199984 from Patent EP1572962.
JD321402 - Sequence 302426 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q86UX7 (Reactome details) participates in the following event(s):

R-HSA-481007 Exocytosis of platelet alpha granule contents
R-HSA-114608 Platelet degranulation
R-HSA-76005 Response to elevated platelet cytosolic Ca2+
R-HSA-76002 Platelet activation, signaling and aggregation
R-HSA-109582 Hemostasis

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000345728.1, ENST00000345728.2, ENST00000345728.3, ENST00000345728.4, ENST00000345728.5, ENST00000345728.6, ENST00000345728.7, ENST00000345728.8, ENST00000345728.9, KIND3, MIG2B, NM_031471, Q86UX7, Q8IUA1, Q8N207, Q9BT48, uc317xgm.1, uc317xgm.2, URP2, URP2_HUMAN
UCSC ID: ENST00000345728.10_10
RefSeq Accession: NM_031471.6
Protein: Q86UX7 (aka URP2_HUMAN)

-  Gene Model Information
  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.