Fcna (ficolin A) - Rat Genome Database

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Gene: Fcna (ficolin A) Mus musculus
Analyze
Symbol: Fcna
Name: ficolin A
RGD ID: 733071
MGI Page MGI
Description: Exhibits carbohydrate derivative binding activity. Involved in complement activation, lectin pathway. Predicted to localize to collagen-containing extracellular matrix and extracellular space. Is expressed in brain; embryo; liver; and spleen. Orthologous to human FCN1 (ficolin 1) and FCN2 (ficolin 2); INTERACTS WITH 17alpha-ethynylestradiol; 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: collagen/fibrinogen domain-containing protein 1; Fcn; Fcn1; ficolin-1; ficolin-A; ficolin-alpha; M-ficolin
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm38 - Mouse Genome Assembly GRCm38
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39225,514,677 - 25,525,448 (-)NCBIGRCm39mm39
GRCm39 Ensembl225,514,678 - 25,518,042 (-)Ensembl
GRCm38225,624,665 - 25,635,440 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl225,624,666 - 25,628,030 (-)EnsemblGRCm38mm10GRCm38
MGSCv37225,480,187 - 25,483,494 (-)NCBIGRCm37mm9NCBIm37
MGSCv36225,446,675 - 25,449,923 (-)NCBImm8
Celera225,353,030 - 25,356,335 (-)NCBICelera
Cytogenetic Map2A3NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


References

Additional References at PubMed
PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12477932   PMID:15475251   PMID:15489334   PMID:15950722   PMID:16141072   PMID:16141073   PMID:16328467   PMID:17110338  
PMID:17669269   PMID:20375621   PMID:21873635   PMID:21943708   PMID:22399010   PMID:22666482   PMID:22792067   PMID:23150716   PMID:23478320   PMID:24040095   PMID:24952961   PMID:27467404  
PMID:28378742   PMID:28380665   PMID:28739878   PMID:28844702   PMID:30818229   PMID:32272397  


Genomics

Comparative Map Data
Fcna
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39225,514,677 - 25,525,448 (-)NCBIGRCm39mm39
GRCm39 Ensembl225,514,678 - 25,518,042 (-)Ensembl
GRCm38225,624,665 - 25,635,440 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl225,624,666 - 25,628,030 (-)EnsemblGRCm38mm10GRCm38
MGSCv37225,480,187 - 25,483,494 (-)NCBIGRCm37mm9NCBIm37
MGSCv36225,446,675 - 25,449,923 (-)NCBImm8
Celera225,353,030 - 25,356,335 (-)NCBICelera
Cytogenetic Map2A3NCBI
FCN3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl127,369,110 - 27,374,824 (-)EnsemblGRCh38hg38GRCh38
GRCh38127,369,110 - 27,374,852 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37127,695,601 - 27,701,343 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36127,568,188 - 27,573,902 (-)NCBINCBI36hg18NCBI36
Build 34127,379,744 - 27,385,457NCBI
Celera126,092,884 - 26,098,611 (-)NCBI
Cytogenetic Map1p36.11NCBI
HuRef125,951,741 - 25,957,459 (-)NCBIHuRef
CHM1_1127,810,336 - 27,816,061 (-)NCBICHM1_1
Fcna
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.238,445,904 - 8,449,128 (-)NCBI
Rnor_6.0 Ensembl32,849,984 - 2,853,272 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.032,850,006 - 2,853,230 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.032,831,419 - 2,834,620 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.433,797,916 - 3,801,117 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.133,797,915 - 3,801,117 (-)NCBI
Celera33,270,846 - 3,274,047 (-)NCBICelera
Cytogenetic Map3p13NCBI
Fcn3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554526,630,505 - 6,635,235 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554526,630,548 - 6,635,334 (-)NCBIChiLan1.0ChiLan1.0
FCN3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1127,676,740 - 27,683,889 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl127,676,866 - 27,683,861 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0126,620,373 - 26,636,424 (-)NCBIMhudiblu_PPA_v0panPan3
FCN3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Dog10K_Boxer_Tasha269,476,250 - 69,480,708 (+)NCBI
ROS_Cfam_1.0273,460,937 - 73,465,399 (+)NCBI
UMICH_Zoey_3.1270,286,939 - 70,291,401 (+)NCBI
UNSW_CanFamBas_1.0271,298,410 - 71,302,868 (+)NCBI
UU_Cfam_GSD_1.0272,294,469 - 72,298,931 (+)NCBI
Fcn3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505845,855,319 - 45,861,098 (-)NCBI
SpeTri2.0NW_00493647411,680,166 - 11,685,214 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
FCN1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.11274,125,666 - 274,132,917 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21308,216,807 - 308,224,034 (-)NCBISscrofa10.2Sscrofa10.2susScr3
FCN3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.120105,414,626 - 105,420,684 (+)NCBI
ChlSab1.1 Ensembl20105,414,650 - 105,420,558 (+)Ensembl
Vero_WHO_p1.0NW_02366603311,038,178 - 11,049,768 (-)NCBI
Fcn3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462476411,265,740 - 11,269,588 (-)NCBI

Position Markers
Fcna  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map2A3UniSTS
cM Map2 UniSTS


QTLs in Region (GRCm38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1301838Sluc16_msusceptibility to lung cancer 16 (mouse)Not determined2126524778Mouse
12904743Carcdq3_mcardiac collagen deposition QTL 3 (mouse)2323390328289138Mouse
1301769Orgwq2_morgan weight QTL 2 (mouse)Not determined2388608993591306Mouse
1301980Fcsa5_mfemoral cross-sectional area 5 (mouse)Not determined2778910341789249Mouse
1301790Pcfm1_mperiosteal circumference and femur length 1 (mouse)Not determined2834628442346384Mouse
10043876Adip22_madiposity 22 (mouse)Not determined2841803942418228Mouse
1300624Insq7_minsulin QTL 7 (mouse)Not determined2949443443494563Mouse
10755513Amzn4_manatomical modifier of Zfp423 4 (mouse)2949443443494563Mouse
12903993Opfaq1_mopen field activity QTL 1 (mouse)2967188027132630Mouse
8552707Cia23_mcollagen induced arthritis QTL 23 (mouse)Not determined21212472666726109Mouse
1301641Sbmd2_mspinal bone mineral density 2 (mouse)Not determined21432455548324701Mouse
1357454Kidq1_mkidney weight QTL 1 (mouse)Not determined220892967119064359Mouse
1357436Splq1_mspleen weight QTL 1 (mouse)Not determined220892967119064359Mouse
1357829Lvrq1_mliver weight QTL 1 (mouse)Not determined220892967119064359Mouse
1558899Egq1_mearly growth QTL 1 (mouse)Not determined220892967119064359Mouse
1558738W6q1_mweight 6 weeks QTL 1 (mouse)Not determined220892967119064359Mouse
1558966W10q9_mweight 10 weeks QTL 9 (mouse)Not determined220892967119064359Mouse
1558915W3q1_mweight 3 weeks QTL 1 (mouse)Not determined220892967119064359Mouse
1357681Hrtq1_mheart weight QTL 1 (mouse)Not determined220892967119064359Mouse
1357881Estoq1_membryo survival total QTL 1 (mouse)Not determined220892967119064359Mouse
39128209Lwq14_mliver weight QTL 14 (mouse)220892967119064359Mouse
4141708Pbwg1.2_mpostnatal body weight growth 1.2 (mouse)Not determined2123971355239859Mouse
1301376Etohc1_methanol consumption 1 (mouse)Not determined22123971355239859Mouse
13463470Tubisq1_mtubulointerstitial injury severity, QTL 1 (mouse)22379913357799257Mouse
1302174Dssc2_mdextran sodium sulfate induced colitis QTL2 (mouse)Not determined224334620148858457Mouse
26884438Sklq12_mskull length QTL 12, 16 week (mouse)22470000055000000Mouse
8552705Cia25_mcollagen induced arthritis 25 (mouse)Not determined22478910333633160Mouse
8552706Cia24_mcollagen induced arthritis QTL 24 (mouse)Not determined22478910333633160Mouse
4142130Pgis2_mproteoglycan induced spondylitis 2 (mouse)Not determined22541803957081799Mouse

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:279
Count of miRNA genes:230
Interacting mature miRNAs:248
Transcripts:ENSMUST00000028307, ENSMUST00000142371
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000028307   ⟹   ENSMUSP00000028307
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl225,624,666 - 25,628,030 (-)Ensembl
RefSeq Acc Id: ENSMUST00000142371
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl225,624,965 - 25,627,288 (-)Ensembl
RefSeq Acc Id: NM_007995   ⟹   NP_032021
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39225,514,679 - 25,517,986 (-)NCBI
GRCm38225,624,667 - 25,627,974 (-)NCBI
MGSCv37225,480,187 - 25,483,494 (-)RGD
Celera225,353,030 - 25,356,335 (-)RGD
cM Map2 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_006497673   ⟹   XP_006497736
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39225,514,677 - 25,518,081 (-)NCBI
GRCm38225,624,665 - 25,628,390 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006497675   ⟹   XP_006497738
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39225,514,677 - 25,518,037 (-)NCBI
GRCm38225,624,665 - 25,628,025 (-)NCBI
Sequence:
RefSeq Acc Id: XM_011239016   ⟹   XP_011237318
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39225,514,677 - 25,525,448 (-)NCBI
GRCm38225,624,665 - 25,635,440 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_032021   ⟸   NM_007995
- Peptide Label: precursor
- UniProtKB: O70165 (UniProtKB/Swiss-Prot),   Q4FJM1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006497736   ⟸   XM_006497673
- Peptide Label: isoform X1
- UniProtKB: O70165 (UniProtKB/Swiss-Prot),   Q4FJM1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006497738   ⟸   XM_006497675
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_011237318   ⟸   XM_011239016
- Peptide Label: isoform X1
- UniProtKB: O70165 (UniProtKB/Swiss-Prot),   Q4FJM1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSMUSP00000028307   ⟸   ENSMUST00000028307
Promoters
RGD ID:6831367
Promoter ID:MM_KWN:28183
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Kidney
Transcripts:OTTMUST00000029725,   OTTMUST00000029726
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36225,484,156 - 25,484,656 (-)MPROMDB
RGD ID:6876634
Promoter ID:EPDNEW_M1768
Type:initiation region
Name:Fcna_1
Description:Mus musculus ficolin A , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38225,627,940 - 25,628,000EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1340905 AgrOrtholog
Ensembl Genes ENSMUSG00000026938 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSMUSP00000028307 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000028307 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 3.90.215.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  4.10.530.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro Collagen UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Fibrinogen-like_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Fibrinogen_a/b/g_C_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Fibrinogen_a/b/g_C_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Fibrinogen_a/b/g_C_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Fibrinogen_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:14133 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGD MGI:1340905 ENTREZGENE
NCBI Gene 14133 ENTREZGENE
Pfam Collagen UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Fibrinogen_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Fcna PhenoGen
PROSITE FIBRINOGEN_C_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  FIBRINOGEN_C_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART FBG UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF56496 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt FCN1_MOUSE UniProtKB/Swiss-Prot, ENTREZGENE
  Q2WFW2_MOUSE UniProtKB/TrEMBL
  Q4FJM1 ENTREZGENE, UniProtKB/TrEMBL