Fcnb ficolin B [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Fcnbprovided by RGD
Official Full Name: ficolin Bprovided by RGD
Primary source: RGD:621222
See related: EnsemblRapid:ENSRNOG00000009342 AllianceGenome:RGD:621222
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Fcn2
Summary: Predicted to enable several functions, including antigen binding activity; pattern recognition receptor activity; and sialic acid binding activity. Predicted to be involved in several processes, including activation of immune response; positive regulation of interleukin-8 production; and positive regulation of opsonization. Predicted to be located in plasma membrane. Predicted to be part of serine-type endopeptidase complex. Predicted to be active in collagen-containing extracellular matrix and extracellular space. Orthologous to several human genes including FCN1 (ficolin 1). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Spleen (RPKM 180.6), Thymus (RPKM 75.4) and 4 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 3p12

Exon count:: 9

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	3	NC_086021.1 (31791750..31800188, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	3	NC_051338.1 (11393713..11402198, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	3	NC_005102.4 (6617816..6626193, complement)

Chromosome 3 - NC_086021.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Rat ficolin-B activated MASP-2 comparable to ficolin-A.
Title: Carbohydrate recognition and complement activation by rat ficolin-B.

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables G protein-coupled receptor binding	ISO Inferred from Sequence Orthology more info
enables antigen binding	IBA Inferred from Biological aspect of Ancestor more info
enables carbohydrate binding	IEA Inferred from Electronic Annotation more info
enables carbohydrate derivative binding	IBA Inferred from Biological aspect of Ancestor more info
enables carbohydrate derivative binding	ISO Inferred from Sequence Orthology more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables pattern recognition receptor activity	ISO Inferred from Sequence Orthology more info
enables sialic acid binding	ISO Inferred from Sequence Orthology more info
enables signaling receptor binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in G protein-coupled receptor signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in cell surface pattern recognition receptor signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in complement activation, lectin pathway	IBA Inferred from Biological aspect of Ancestor more info
involved_in complement activation, lectin pathway	ISO Inferred from Sequence Orthology more info
involved_in innate immune response	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of viral entry into host cell	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of interleukin-8 production	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of opsonization	ISO Inferred from Sequence Orthology more info
involved_in protein localization to cell surface	ISO Inferred from Sequence Orthology more info
involved_in proteolysis	ISO Inferred from Sequence Orthology more info
involved_in recognition of apoptotic cell	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
part_of collagen trimer	IEA Inferred from Electronic Annotation more info
is_active_in collagen-containing extracellular matrix	IBA Inferred from Biological aspect of Ancestor more info
located_in extracellular region	IEA Inferred from Electronic Annotation more info
is_active_in extracellular space	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
part_of serine-type endopeptidase complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: ficolin-2

Names: L-ficolin; collagen/fibrinogen domain-containing protein 2; ficolin-beta

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_053634.2 → NP_446086.1 ficolin-2 precursor

See identical proteins and their annotated locations for NP_446086.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000003

UniProtKB/Swiss-Prot

P57756

UniProtKB/TrEMBL

A0A8I6AEL8, A6JTM2

Related

ENSRNOP00000012494.3, ENSRNOT00000012494.8

Conserved Domains (2) summary

cd00087
Location:108 → 317

FReD; Fibrinogen-related domains (FReDs); C terminal globular domain of fibrinogen. Fibrinogen is involved in blood clotting, being activated by thrombin to assemble into fibrin clots. The N-termini of 2 times 3 chains come together to form a globular ...

pfam01391
Location:45 → 100

Collagen; Collagen triple helix repeat (20 copies)