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F13B Gene

protein-coding   GIFtS: 57

GC01M195274
coagulation factor XIII, B polypeptide
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
Services    
(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase)
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Aliases
FXIIIB 1, 2
OTTHUMP00000034674 2
TGase 2
Descriptions
Fibrin-stabilizing factor B subunit 3
Protein-glutamine gamma-glutamyltransferase B chain 3
Transglutaminase B chain 3
coagulation factor XIII B subunit 2
coagulation factor XIII, B polypeptide 2
External Ids
HGNC: 35341
Entrez Gene: 21652
UniProtKB: P051603
Ensembl: ENSG000001432787
Search outside databases for aliases for F13B gene

Previous GC identifers: GC01M194735 GC01M192466 GC01M193474 GC01M194296 GC01M193739

(According to Entrez Gene, Wikipedia's Gene Wiki,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

EntrezGene summary for F13B:
This gene encodes coagulation factor XIII B subunit. Coagulation factor XIII is the last zymogen to
become activated in the blood coagulation cascade. Plasma factor XIII is a heterotetramer composed
of 2 A subunits and 2 B subunits. The A subunits have catalytic function, and the B subunits do
not have enzymatic activity and may serve as a plasma carrier molecules. Platelet factor XIII is
comprised only of 2 A subunits, which are identical to those of plasma origin. Upon activation by
the cleavage of the activation peptide by thrombin and in the presence of calcium ion, the plasma
factor XIII dissociates its B subunits and yields the same active enzyme, factor XIIIa, as
platelet factor XIII. This enzyme acts as a transglutaminase to catalyze the formation of
gamma-glutamyl-epsilon-lysine crosslinking between fibrin molecules, thus stabilizing the fibrin
clot. Factor XIII deficiency is classified into two categories: type I deficiency, characterized
by the lack of both the A and B subunits; and type II deficiency, characterized by the lack of the
A subunit alone. These defects can result in a lifelong bleeding tendency, defective wound
healing, and habitual abortion. [provided by RefSeq]

UniProtKB/Swiss-Prot: F13B_HUMAN, P05160
Function: The B chain of factor XIII is not catalytically active, but is thought to stabilize the A
subunits and regulate the rate of transglutaminase formation by thrombin

Gene Wiki entry for F13B

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 36),
and/or miRBase,
Genomic Views according to UCSC and Ensembl, Transcription factor binding sites according to SABiosciences)
About This Section

Genomic View:
UCSC Golden Path with GeneCards custom track

 Transcription factor binding sites upstream to the F13B gene  

Entrez Gene cytogenetic band: 1q31-q32.1   Ensembl cytogenetic band:  1q31.3   HGNC cytogenetic band: 1q31-q32.1

F13B Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)

GeneLoc gene densities for chromosome 1         GeneLoc Exon Structure

GeneLoc location for GC01M195274:     (about GC identifiers)

Start:
195,274,944 bp from pter
End:
195,303,020 bp from pter
Size:
28,077 bases
Orientation:
minus strand
RefSeq DNA sequence:
NC_000001.9  NT_004487.18  
(According to 1UniProtKB, and/or Ensembl, Phosphorylation sites according to 2Phosphosite, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Enzo Life Sciences, Abnova, OriGene and/or, Abcam,
Biochemical Assays by Invitrogen, Millipore, R&D Systems, Cell Signaling Technology, and/or Enzo Life Sciences, Ontologies according to Gene Ontology Consortium 01 Apr 2009 and Entrez Gene, Antibodies by Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Cell Signaling Technology, Abcam, Abnova, and/or Novus Biologicals)
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UniProtKB/Swiss-Prot: F13B_HUMAN, P05160 (See protein sequence)
Recommended Name: Coagulation factor XIII B chain precursor  
Size: 661 amino acids; 75511 Da
Subunit: Tetramer of two A chains and two B chains
Secondary accessions: A8K3E5 Q5VYL5

REFSEQ proteins: NP_001985.2  

ENSEMBL proteins: 
ENSP00000356382 


Human Recombinant Proteins 
Browse Drug Discovery Central at Invitrogen for human recombinant proteins
Browse Purified and Recombinant Proteins at Millipore
Browse Human Recombinant Proteins at Sigma-Aldrich  
Browse R&D Systems for human recombinant proteins
Browse recombinant and purified proteins available from Enzo Life Sciences
Recombinant Proteins from Abcam (Factor XIII)
Browse Abnova for Human Recombinant Proteins
                Browse Origene for full length recombinant human proteins expressed in human HEK293 cells 

4 Gene Ontology (GO) cellular component terms (links to tree view):

GO IDQualified GO termEvidencePubMed IDs
GO:0005576 extracellular region NAS14718574
GO:0005737 cytoplasm IDA18029348
GO:0005856 cytoskeleton IDA18029348
GO:0005886 plasma membrane IDA18029348
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Antibodies for F13B: 
Browse Antibodies Central at Invitrogen
Browse Millipore's Extensive Line of Mono- and Polyclonal Antibodies
Sigma-Aldrich Antibodies for F13B
Browse R&D Systems for Antibodies
Antibodies from Abcam (Factor XIII), each with their AbpromiseSM
Browse Abnova for Monoclonal and Polyclonal Antibodies
Search Novus for antibodies for F13B

Assays for F13B: 
Browse Invitrogen for biochemical assays
Browse Kits and Assays available from Millipore
Browse R&D Systems for biochemical assays
Browse biochemical assays available from Enzo Life Sciences

(According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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2 InterPro domains/families:
 IPR000436 Sushi_SCR_CCP
 IPR016060 Complement_control_module


   GeneDecks  F13B for the domains selected above  
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Graphical View of Domain Structure for InterPro Entry P05160

ProtoNet protein and cluster: P05160

1 Blocks protein family: IPB000436 Sushi domain/SCR domain/CCP module

UniProtKB/Swiss-Prot: F13B_HUMAN, P05160
Similarity: Contains 10 Sushi (CCP/SCR) domains

(According to MGI Jun 06 2009, UniProtKB, IUBMB,and/or Genatlas,
shRNA from OriGene, Sigma-Aldrich, RNAi from Sigma-Aldrich,
RNAi Products, Clones, and Q-PCR Products from Invitrogen, Millipore, OriGene, and/or Abnova, siRNAs from Applied Biosystems, SYBR primers from OriGene, Cell-based Assays from Millipore, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
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Inhib.
RNA:
Invitrogen RNAi Products for gene knock-down (F13B)
Browse for Gene Knock-down Tools from Millipore
Browse Abnova for Chimera RNAi Products
              OriGene 29mer shRNA kit in GFP-retroviral vector: NM_001994

              Applied Biosystems Silencer® siRNAs for F13B

              Sigma-Aldrich siRNA for F13B  
                     Sigma-Aldrich shRNA for F13B  
                     Explore Sigma-Aldrich super-pooled esiRNAs  

Clones:Browse Clone Ranger at Invitrogen for clones
Browse Clones for the Expression of Recombinant Proteins Available from Millipore
              OriGene GFP tagged cDNA clone in CMV expression vector: NM_001994
                                 Myc/DDK tagged cDNA clone in CMV expression vector: NM_001994
                                 untagged cDNA clone in CMV expression vector: NM_001994 

Primers: Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers
              OriGene genome-wide validated SYBR primer pairs: NM_001994

UniProtKB/Swiss-Prot: F13B_HUMAN, P05160
Function: The B chain of factor XIII is not catalytically active, but is thought to stabilize the A
subunits and regulate the rate of transglutaminase formation by thrombin

Genatlas biochemistry entry for F13B:
coagulation factor XIII,B polypeptide,non catalytic (80kDa)
(Pathways according to Invitrogen (maps by GeneGo), Millipore, Cell Signaling Technology, Sigma-Aldrich, KEGG and/or UniProtKB,
Sets of similar genes according to GeneDecks, Proteins Network according to SABiosciences, Interactions according to 1UniProtKB, 2MINT, and/or 3STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
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1 Millipore Pathway for F13B
 Selected targets of HNF1

   GeneDecks  F13B for the pathways selected above  
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1 Sigma-Aldrich "Your Favorite Gene" Pathway for  F13B  (Your Favorite Gene powered by Ingenuity) 
 Coagulation System

   GeneDecks  F13B for the pathways selected above  
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1 Kegg Pathway  (Kegg details for F13B):
 hsa04610 Complement and coagulation cascades

   GeneDecks  F13B for the pathways selected above  
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5/17 Interacting proteins for F13B (ENSP000003563823) via UniProtKB, MINT, and/or STRING (see all 17 )
InteractantInteraction Details
GeneCardExternal ID(s)
F13A1ENSP000002648703STRING (score=.998)
FGGENSP000003368293STRING (score=.978)
FGAENSP000003063613STRING (score=.969)
FGBENSP000003060993STRING (score=.929)
F10ENSP000003647093STRING (score=.912)
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1 Gene Ontology (GO) biological process term (links to tree view):

GO IDQualified GO termEvidencePubMed IDs
GO:0007596 blood coagulation TAS2334637
About this table
(Chemical Compounds according to UniProtKB, Enzo Life Sciences, Sigma-Aldrich, Tocris Bioscience, and/or Novoseek and Drugs according to Enzo Life Sciences and/or PharmGKB)
About This Section

Browse drugs & compounds from Enzo Life Sciences
Browse Small Molecules at Sigma-Aldrich

Browse Tocris compounds for F13B

(GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 219 Homo sapiens; Jun 2 2009) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView,
non coding RNAs according to RNAdb,
ESTs according to GeneTide,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
RNAi Products from Invitrogen, Millipore, and/or Abnova,
siRNAs from Applied Biosystems, Sigma-Aldrich,
shRNA from Sigma-Aldrich, OriGene,
Tagged/untagged cDNA clones from OriGene,
Expression Assays from Applied Biosystems)
About This Section

Inhib.
RNA:
Invitrogen RNAi Products for gene knock-down (F13B)
Browse for Gene Knock-down Tools from Millipore
Browse Abnova for Chimera RNAi Products
              OriGene 29mer shRNA kit in GFP-retroviral vector: NM_001994

              Sigma-Aldrich siRNA for F13B  
                     Sigma-Aldrich shRNA for F13B  
                     Explore Sigma-Aldrich super-pooled esiRNAs  

Applied Biosystems Silencer® siRNAs: 

NM_001994  

REFSEQ mRNAs for F13B gene: 

NM_001994.2   

Applied Biosystems TaqMan ® Gene Expression Assays: 

NM_001994  

              OriGene GFP tagged cDNA clone in CMV expression vector: NM_001994
                                 Myc/DDK tagged cDNA clone in CMV expression vector: NM_001994
                                 untagged cDNA clone in CMV expression vector: NM_001994 

Additional cDNA sequence: 

AK290560.1 M14057.1 

2 DOTS entries:

DT.205660  DT.40130708 

8 AceView cDNA sequences:

R28976 BG565816 M14057 BV183392 BX510295 NM_001994 BG200902 BV178758 

highest scoring ESTs for F13B:

AV653108 AV659008 AV659833 M14057 AV659626 BG200902 BG565816 BX510295 NM_001994 R28976 

Unigene Cluster for F13B:

Coagulation factor XIII, B polypeptide
Hs.435782  [show with all ESTs]
Unigene Representative Sequence: NM_001994


GeneLoc Exon Structure

1 Ensembl transcript including schematic representation:
ENST00000367412  
(Experimental results according to 1GeneNote and GNF BioGPS,
probe sets-to-genes annotations according to 2GeneAnnot , 3GeneTide , Sets of similar genes according to GeneDecks, Electronic Northern calculations according to data from UniGene (Build 219 Homo sapiens), SAGE tags according to CGAP, plus additional links to SOURCE, and/or GNF BioGPS, and/or EXPOLDB, and/or UniProtKB,
Expression Assays from Applied Biosystems )
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F13B expression in normal and diseased human tissues

 Applied Biosystems TaqMan ® Gene Expression Assays for F13B

1 / 2 / 3

3 probe-sets matching F13B gene


Affymetrix
probe-set
Array  GeneAnnot data GeneNote data GeneTide data
# genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank
34616_at2, 3 U95-A 1 1.00 1.00 1.00 1.00 M64554 0.20 1.00 0.72 1

207810_at2, 3 U133-A 1 1.00 1.00 -- -- NM_001994 0.60 1.00 0.82 1

207810_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --
GeneDecks  F13B for binary patterns associated with the probe-sets selected above  
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About this table    
Data from (Publications) and GNF BioGPS
    About these images
About these images

CGAP SAGE TAG: --

SOURCE GeneReport for Unigene cluster: Hs.435782

Expression variation in blood from EXPOLDB for F13B

(Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD and/or 5MGI Jun 06 2009, with possible further links to Flybase and/or WormBase, Gene Trees according to Ensembl)
About This Section


Orthologs for F13B gene from 5/6 species (see all 6 )
Organism Gene Locus Description Human
Similarity
NCBI accessions
dog
(Canis familiaris)
F13B1   -- coagulation factor XIII, B polypeptide 87.62(n)
82.66(a)
490261  XM_547380.2  XP_547380.2 
chimpanzee
(Pan troglodytes)
F13B1   -- coagulation factor XIII, B polypeptide 99.55(n)
99.55(a)
735857  XM_001137074.1  XP_001137074.1 
cow
(Bos taurus)
F13B1   -- coagulation factor XIII, B polypeptide 81.59(n)
75.04(a)
511483  NM_001038529.1  NP_001033618.1 
rat
(Rattus norvegicus)
F13b1   -- coagulation factor XIII, B polypeptide 80.43(n)
77(a)
289055  XM_222693.3  XP_222693.3 
mouse
(Mus musculus)
F13b1, 5 1 (74.10 cM)5
coagulation factor XIII, beta subunit1, 5 80.69(n)1
77.16(a)1
140601  NM_031164.11  NP_112441.11 
 AI1150495  AI5271435  (see all 11)
About this table        Species with no ortholog for F13B

ENSEMBL Gene Tree for F13B
(Paralogs according to 1HomoloGene
and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
About This Section

Paralogs for F13B gene
CFHR42  CFHR22  CFHR52  CFHR32  CFH2  CFHR12  

(According to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Genotyping Reagents from Applied Biosystems)
About This Section


10/251 NCBI SNPs in F13B are shown (see all 251 )
(Click for Applied Biosystems TaqMan ® Genotyping Assay)  (see all 75)
ABGenomic DataTranscription DataAllele Frequencies
SNP IDValidChr 1 posSequenceRecsAA
Chg
TypeMoreRecsAllele
freq
PopTotal
sample
More
------------
rs60031,2
A,C,F,H,O195297644(-) CATGCA/GTTATG 1 R/H mis1 ese324Minor allele frequency- G:0.28MN CSA EU CSAM NA NS EA WA 2042
rs14126321,2
A,C,F,H195303491(-) TCAAAT/CACTAC 1 -- ng316Minor allele frequency- C:0.22NS EU EA WA 502
rs14126311,2
A,C,F,H195303860(-) gcaatG/Atactt 1 -- ng3110Minor allele frequency- A:0.27EU EA WA NS 926
rs60011,2
C,F,H195286560(-) CACCTA/CTGAAA 1 Y/S mis1 ese36Minor allele frequency- C:0.00MN EU EA WA 710
rs6988591,2
C,F,H195274988(-) ATTTCG/ATTATT 1 -- ut3112Minor allele frequency- A:0.25NA EA EU WA NS 896
rs60001,2
C,F,H195286481(-) TTAGAT/GGGAAT 1 E/D mis113Minor allele frequency- G:0.06MN NS EU EA WA NA 1292
rs59991,2
C,F,H195292888(-) TTTACA/GCTCTA 1 H/R mis120Minor allele frequency- G:0.02MN NA NS EU EA WA 1848
rs11152471,2
C,F,H195304290(+) ttctcG/Agctgg 1 -- ng316Minor allele frequency- A:0.23EU EA WA NS 508
--
rs11152461,2
C,F195304072(+) gccccG/Atcgtc 1 -- ng312Minor allele frequency- A:0.23NS 90
--
rs127520751,2
H195298674(+) CTTCCA/CCTTTC 1 S/R mis14Minor allele frequency- C:0.00EU EA WA 406
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HapMap Linkage Disequilibrium images for F13B (up to first 250kb)

(in which this Gene is Involved, According to OMIM, UniProtKB, PharmGKB, Genatlas, GeneTests, Blood group antigen gene mutations by BGMUT, HGMD, GAD, HuGE Navigator, BCGD, and/or TGDB.)
About This Section

OMIM: 134580

UniProtKB/Swiss-Prot: F13B_HUMAN, P05160

  • Defects in F13B can result in a lifelong bleeding tendency, defective wound healing, and
    habitual abortion
  • Genatlas disease: F13B
    bleeding tendency,defective wound healing, habitual abortion,fibrin-stabilizing factor
    deficiency,type I

    Human Gene Mutation Database: F13B
    Genetic Association Database: F13B
    Human Genome Epidemiology Navigator: F13B (9 documents)

    (Possibly Related Articles in Doctor's Guide)
    About This Section

      --

    (in PubMed. Associations of this gene to articles via 1Novoseek, 2HGNC, 3Entrez Gene, 4UniProtKB/Swiss-Prot, 5UniProtKB/TrEMBL, 6GAD, and/or 7PharmGKB)
    About This Section

    10/55 PubMed articles for F13B gene (see all 55 ):
    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section

     ANDOR
    Aliases
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)
    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, and/or H-InvDB)
    About This Section

    Entrez Gene: 2165 HGNC: 3534 AceView: F13B Ensembl:ENSG00000143278 euGenes: HUgn2165
    ECgene: F13B H-InvDB: F13B
    (According to HUGE)
    About This Section

      --
    (According to ATLAS, HORDE, IMGT, MTDB, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section

    NameDescription
    SHMPDhttp://shmpd.bii.a-star.edu.sg/gene.php?genestart=F&genename=F13B+%40+FXIIIB
    Wikipedia http://en.wikipedia.org/wiki/Factor_XIII
    SeattleSNPshttp://pga.gs.washington.edu/data/f13b/
    (Available from WIS Yeda, Salk, Tufts)
    About This Section

      --
    (Reagents available from Applied Biosystems, Antibodies and assays by Cell Signaling Technology, Abcam, Novus Biologicals,
    Sigma-Aldrich, R&D Systems, Millipore, Abnova, and/or Invitrogen, Clones available from OriGene,and/or Invitrogen, Drugs and/or compounds by Sigma-Aldrich,
    Enzo Life Sciences, and/or Tocris Bioscience)
    About This Section



    Products for F13B:
     TaqMan ® Gene Expression Assays
     TaqMan ® Genotyping Assays
      Free SNP selection tool



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     Predesigned and custom siRNAs for F13B Antibodies for F13B
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     Search Novus for antibodies for F13B

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