Free for academic non-profit institutions. Other users need a Commercial license

Aliases for FIBCD1 Gene

Aliases for FIBCD1 Gene

  • Fibrinogen C Domain Containing 1 2 3 5

External Ids for FIBCD1 Gene

Previous GeneCards Identifiers for FIBCD1 Gene

  • GC09M129053
  • GC09M130807
  • GC09M132767
  • GC09M133777
  • GC09M103264

Summaries for FIBCD1 Gene

Entrez Gene Summary for FIBCD1 Gene

  • FIBCD1 is a conserved type II transmembrane endocytic receptor that binds chitin and is located primarily in the intestinal brush border (Schlosser et al., 2009 [PubMed 19710473]).[supplied by OMIM, Apr 2010]

GeneCards Summary for FIBCD1 Gene

FIBCD1 (Fibrinogen C Domain Containing 1) is a Protein Coding gene. GO annotations related to this gene include chitin binding. An important paralog of this gene is TNR.

UniProtKB/Swiss-Prot for FIBCD1 Gene

  • Acetyl group-binding receptor which shows a high-affinity and calcium-dependent binding to acetylated structures such as chitin, some N-acetylated carbohydrates, and amino acids, but not to their non-acetylated counterparts. Can facilitate the endocytosis of acetylated components.

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for FIBCD1 Gene

Genomics for FIBCD1 Gene

Regulatory Elements for FIBCD1 Gene

Enhancers for FIBCD1 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH09F130912 1 Ensembl ENCODE 27.1 +25.8 25839 1.5 ELF3 TBL1XR1 ARID4B BMI1 BRCA1 ZSCAN9 RAD21 ZNF48 RFX5 THAP11 FIBCD1 LOC105376297 ABL1 NCS1 QRFP
GH09F130889 1.2 Ensembl ENCODE 21.8 +45.1 45149 8.3 MLX ARID4B DMAP1 ZNF48 YY1 GLIS2 ZNF263 SP5 MXD4 REST FIBCD1 LOC105376297 ABL1 QRFP PIR46877
GH09F130869 0.6 ENCODE 16 +69.9 69938 0.2 ZBTB48 ZNF18 ABL1 FIBCD1 QRFP LOC105376297 GC09P130864 PIR46877
GH09F130856 1.7 FANTOM5 Ensembl ENCODE 16 +78.9 78949 7.4 PKNOX1 WRNIP1 ARID4B SIN3A DMAP1 YY1 ZNF143 FOS DEK SP3 ABL1 FIBCD1 QRFP LOC105376297 EXOSC2 GC09P130864 GC09P130853 GC09P130854
GH09F130927 0.6 Ensembl ENCODE 13.1 +10.8 10804 2.0 PKNOX1 EBF1 TEAD3 ZFHX2 GLIS2 PATZ1 EED PRDM10 RCOR1 FOSL2 FIBCD1 LOC105376297 QRFP
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around FIBCD1 on UCSC Golden Path with GeneCards custom track

Promoters for FIBCD1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001316035 186 1401 ZNF2 GLIS2 ZNF366 EGR2 ELK4 ZNF263 SP3 ZEB2 ZNF843 SMARCB1

Genomic Location for FIBCD1 Gene

Chromosome:
9
Start:
130,902,438 bp from pter
End:
130,939,286 bp from pter
Size:
36,849 bases
Orientation:
Minus strand

Genomic View for FIBCD1 Gene

Genes around FIBCD1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
FIBCD1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for FIBCD1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for FIBCD1 Gene

Proteins for FIBCD1 Gene

  • Protein details for FIBCD1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8N539-FBCD1_HUMAN
    Recommended name:
    Fibrinogen C domain-containing protein 1
    Protein Accession:
    Q8N539
    Secondary Accessions:
    • A3KFK0
    • Q6UXK6
    • Q96SJ7

    Protein attributes for FIBCD1 Gene

    Size:
    461 amino acids
    Molecular mass:
    50744 Da
    Quaternary structure:
    • Homotetramer; disulfide-linked.

    Three dimensional structures from OCA and Proteopedia for FIBCD1 Gene

    Alternative splice isoforms for FIBCD1 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for FIBCD1 Gene

Post-translational modifications for FIBCD1 Gene

  • Glycosylation at Asn 340
  • Modification sites at PhosphoSitePlus

Other Protein References for FIBCD1 Gene

No data available for DME Specific Peptides for FIBCD1 Gene

Domains & Families for FIBCD1 Gene

Gene Families for FIBCD1 Gene

Suggested Antigen Peptide Sequences for FIBCD1 Gene

Graphical View of Domain Structure for InterPro Entry

Q8N539

UniProtKB/Swiss-Prot:

FBCD1_HUMAN :
  • Contains 1 fibrinogen C-terminal domain.
Domain:
  • Contains 1 fibrinogen C-terminal domain.
genes like me logo Genes that share domains with FIBCD1: view

Function for FIBCD1 Gene

Molecular function for FIBCD1 Gene

UniProtKB/Swiss-Prot Function:
Acetyl group-binding receptor which shows a high-affinity and calcium-dependent binding to acetylated structures such as chitin, some N-acetylated carbohydrates, and amino acids, but not to their non-acetylated counterparts. Can facilitate the endocytosis of acetylated components.

Gene Ontology (GO) - Molecular Function for FIBCD1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 25416956
GO:0008061 chitin binding IEA,IDA 19710473
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with FIBCD1: view
genes like me logo Genes that share phenotypes with FIBCD1: view

Animal Model Products

  • Taconic Biosciences Mouse Models for FIBCD1

Inhibitory RNA Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for FIBCD1 Gene

Localization for FIBCD1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for FIBCD1 Gene

Membrane; Single-pass type II membrane protein.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for FIBCD1 Gene COMPARTMENTS Subcellular localization image for FIBCD1 gene
Compartment Confidence
plasma membrane 3
extracellular 1
lysosome 1
mitochondrion 1
nucleus 1
vacuole 1

Gene Ontology (GO) - Cellular Components for FIBCD1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0016020 membrane IEA,IDA 19710473
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with FIBCD1: view

Pathways & Interactions for FIBCD1 Gene

SuperPathways for FIBCD1 Gene

No Data Available

Interacting Proteins for FIBCD1 Gene

STRING Interaction Network Preview (showing 5 interactants - click image to see 7)
http://string-db.org/version_10/api/image/networkList?limit=0&targetmode=proteins&caller_identity=gene_cards&network_flavor=evidence&identifiers=9606.ENSP00000361413%0d%0a9606.ENSP00000344818%0d%0a9606.ENSP00000256646%0d%0a9606.ENSP00000263388%0d%0a9606.ENSP00000364163%0d%0a9606.ENSP00000277541%0d%0a
Selected Interacting proteins: ENSP00000361413 Q8N539-FBCD1_HUMAN for FIBCD1 Gene via STRING IID UniProtKB

Gene Ontology (GO) - Biological Process for FIBCD1 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for FIBCD1 Gene

Transcripts for FIBCD1 Gene

Unigene Clusters for FIBCD1 Gene

Fibrinogen C domain containing 1:
Representative Sequences:

Inhibitory RNA Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for FIBCD1 Gene

ExUns: 1 ^ 2 ^ 3a · 3b ^ 4 ^ 5a · 5b ^ 6 ^ 7 ^ 8 ^ 9 ^ 10a · 10b · 10c
SP1: -
SP2: - -
SP3: - -
SP4: - -

Relevant External Links for FIBCD1 Gene

GeneLoc Exon Structure for
FIBCD1
ECgene alternative splicing isoforms for
FIBCD1

Expression for FIBCD1 Gene

mRNA expression in normal human tissues for FIBCD1 Gene

mRNA differential expression in normal tissues according to GTEx for FIBCD1 Gene

This gene is overexpressed in Brain - Hippocampus (x17.3), Adrenal Gland (x8.6), and Testis (x7.5).

Protein differential expression in normal tissues from HIPED for FIBCD1 Gene

This gene is overexpressed in Retina (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for FIBCD1 Gene



Protein tissue co-expression partners for FIBCD1 Gene

NURSA nuclear receptor signaling pathways regulating expression of FIBCD1 Gene:

FIBCD1

SOURCE GeneReport for Unigene cluster for FIBCD1 Gene:

Hs.133205

mRNA Expression by UniProt/SwissProt for FIBCD1 Gene:

Q8N539-FBCD1_HUMAN
Tissue specificity: Expressed in the small and large intestinal epithelial cells with a highly polarized localization to the apical surface corresponding to the brush border and in the ducts of the salivary gland.
genes like me logo Genes that share expression patterns with FIBCD1: view

Primer Products

Orthologs for FIBCD1 Gene

This gene was present in the common ancestor of animals.

Orthologs for FIBCD1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia FIBCD1 34 35
  • 99.28 (n)
cow
(Bos Taurus)
Mammalia FIBCD1 34 35
  • 89.28 (n)
dog
(Canis familiaris)
Mammalia FIBCD1 34 35
  • 89.01 (n)
mouse
(Mus musculus)
Mammalia Fibcd1 34 16 35
  • 85.98 (n)
rat
(Rattus norvegicus)
Mammalia Fibcd1 34
  • 85.62 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia FIBCD1 35
  • 75 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia FIBCD1 35
  • 72 (a)
OneToOne
chicken
(Gallus gallus)
Aves FIBCD1 34 35
  • 75.6 (n)
lizard
(Anolis carolinensis)
Reptilia -- 35
  • 85 (a)
OneToMany
-- 35
  • 55 (a)
OneToMany
tropical clawed frog
(Silurana tropicalis)
Amphibia fibcd1 34
  • 70.1 (n)
African clawed frog
(Xenopus laevis)
Amphibia Xl.6455 34
zebrafish
(Danio rerio)
Actinopterygii FIBCD1 (2 of 2) 35
  • 81 (a)
OneToMany
si:dkeyp-51b7.3 34
  • 69.21 (n)
fibcd1 35
  • 66 (a)
OneToMany
fruit fly
(Drosophila melanogaster)
Insecta CG30280 34
  • 55.83 (n)
CG41520 35
  • 16 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 55 (a)
ManyToMany
-- 35
  • 52 (a)
ManyToMany
-- 35
  • 48 (a)
ManyToMany
-- 35
  • 48 (a)
ManyToMany
Species where no ortholog for FIBCD1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for FIBCD1 Gene

ENSEMBL:
Gene Tree for FIBCD1 (if available)
TreeFam:
Gene Tree for FIBCD1 (if available)

Paralogs for FIBCD1 Gene

Paralogs for FIBCD1 Gene

genes like me logo Genes that share paralogs with FIBCD1: view

Variants for FIBCD1 Gene

Sequence variations from dbSNP and Humsavar for FIBCD1 Gene

SNP ID Clin Chr 09 pos Sequence Context AA Info Type
rs10113902 -- 130,913,063(+) GCGCC(C/T)GGGCT intron-variant
rs10114587 -- 130,919,895(+) TGTTG(A/G)GGGCT intron-variant
rs10115282 -- 130,925,013(+) GCTGA(A/G)GTAGG intron-variant
rs10117902 -- 130,923,067(+) TACAG(C/T)AGGTG intron-variant
rs10119251 -- 130,910,473(+) cgccc(C/G)gtccc intron-variant

Structural Variations from Database of Genomic Variants (DGV) for FIBCD1 Gene

Variant ID Type Subtype PubMed ID
esv2677011 CNV deletion 23128226
esv2759717 CNV loss 17122850
esv3621866 CNV gain 21293372
esv3621869 CNV loss 21293372
esv3621871 CNV loss 21293372
nsv466601 CNV loss 19166990
nsv469903 CNV loss 18288195
nsv522953 CNV loss 19592680
nsv526527 CNV loss 19592680
nsv615534 CNV loss 21841781
nsv6735 CNV deletion 18451855
nsv825125 CNV gain 20364138
nsv831737 CNV loss 17160897
nsv8572 CNV gain 18304495
nsv951789 CNV deletion 24416366

Variation tolerance for FIBCD1 Gene

Residual Variation Intolerance Score: 90% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.32; 41.37% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for FIBCD1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
FIBCD1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for FIBCD1 Gene

Disorders for FIBCD1 Gene

Relevant External Links for FIBCD1

Human Genome Epidemiology (HuGE) Navigator
FIBCD1
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
FIBCD1

No disorders were found for FIBCD1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for FIBCD1 Gene

Publications for FIBCD1 Gene

  1. The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment. (PMID: 12975309) Clark H.F. … Gray A.M. (Genome Res. 2003) 2 3 4 64
  2. The recognition unit of FIBCD1 organizes into a noncovalently linked tetrameric structure and uses a hydrophobic funnel (S1) for acetyl group recognition. (PMID: 19892701) Thomsen T. … Holmskov U. (J. Biol. Chem. 2010) 3 4 64
  3. Characterization of FIBCD1 as an acetyl group-binding receptor that binds chitin. (PMID: 19710473) Schlosser A. … Holmskov U. (J. Immunol. 2009) 3 4 64
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 64
  5. Crystal structure of the tetrameric fibrinogen-like recognition domain of fibrinogen C domain containing 1 (FIBCD1) protein. (PMID: 24293368) Shrive A.K. … Holmskov U. (J. Biol. Chem. 2014) 3 64

Products for FIBCD1 Gene

Sources for FIBCD1 Gene

Content
Loading form....