Fn1 Gene Detail

Summary

• Symbol
  Fn1
• Name
  fibronectin 1
• Synonyms
  Fn, Fn-1

• Feature Type
  protein coding gene
• IDs
  MGI:95566
  NCBI Gene: 14268
• Alliance
  gene page
• Transcription Start Sites
  48 TSS
• Candidate for QTL
  8 QTL

Location &
Maps

• Sequence Map
  Chr1:71624679-71692359 bp, - strand

  From Ensembl annotation of GRCm39
  

• View this region in JBrowse
  

• Genome Browsers
  Ensembl | UCSC | NCBI

• Genetic Map
  Chromosome 1, 36.05 cM, cytoband C1-C5
• Mapping Data
  42 experiments

Strain
Comparison

• SNPs within 2kb
  1906 from dbSNP Build 142
• Strain Annotations
  18
• RFLP
  11

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_95566	protein coding gene	Chr1:71624632-71692439 (-)
129S1/SvImJ	MGP_129S1SvImJ_G0016127	protein coding gene	Chr1:72018786-72090707 (-)
A/J	MGP_AJ_G0016110	protein coding gene	Chr1:69474955-69543099 (-)
AKR/J	MGP_AKRJ_G0016067	protein coding gene	Chr1:71468988-71538134 (-)
BALB/cJ	MGP_BALBcJ_G0016065	protein coding gene	Chr1:69598423-69666845 (-)
C3H/HeJ	MGP_C3HHeJ_G0015896	protein coding gene	Chr1:71789027-71864687 (-)
C57BL/6NJ	MGP_C57BL6NJ_G0016518	protein coding gene	Chr1:74773795-74846666 (-)
CAROLI/EiJ	MGP_CAROLIEiJ_G0014239	protein coding gene	Chr1:65189384-65256915 (-)
CAST/EiJ	MGP_CASTEiJ_G0015480	protein coding gene	Chr1:71041782-71114241 (-)
CBA/J	MGP_CBAJ_G0015869	protein coding gene	Chr1:77277522-77347109 (-)
DBA/2J	MGP_DBA2J_G0015970	protein coding gene	Chr1:68868414-68936952 (-)
FVB/NJ	MGP_FVBNJ_G0015973	protein coding gene	Chr1:68049925-68118027 (-)
LP/J	MGP_LPJ_G0016042	protein coding gene	Chr1:73086299-73156745 (-)
NOD/ShiLtJ	MGP_NODShiLtJ_G0015993	protein coding gene	Chr1:80788236-80857413 (-)
NZO/HlLtJ	MGP_NZOHlLtJ_G0016565	protein coding gene	Chr1:71455936-71528695 (-)
PWK/PhJ	MGP_PWKPhJ_G0015267	protein coding gene	Chr1:68296216-68366484 (-)
SPRET/EiJ	MGP_SPRETEiJ_G0015046	protein coding gene	Chr1:70864911-70938689 (-)
WSB/EiJ	MGP_WSBEiJ_G0015542	protein coding gene	Chr1:71285210-71353476 (-)

Homology

• Human Ortholog
  FN1, fibronectin 1

• Vertebrate Orthologs
  4

Vertebrate Orthology Source

Alliance of Genome Resources

• Human Ortholog
  FN1, fibronectin 1
  
• Synonyms
  CIG, ED-B, FINC, FN, FNZ, GFND, GFND2, LETS, MSF, SMDCF
• Links
  HGNC:3778

  NCBI Gene ID: 2335

  neXtProt AC: NX_P02751

  UniProt: P02751

  
  
• Chr Location
  2q35; chr2:215360440-215436073 (-)  GRCh38

---

• MGI Vertebrate Homology
  Fn1 stringent orthology
  1 human;1 mouse;1 rat;2 zebrafish
  
• HCOP
  vertebrate homology predictions: FN1
• Gene Tree
  Fn1
  

Human Diseases

• Diseases
  3 with human FN1 associations

				Human Disease	Mouse Models
				calcium oxalate nephrolithiasis IDs calcium oxalate nephrolithiasis       DOID:0080652 OMIM:167030
				membranoproliferative glomerulonephritis IDs membranoproliferative glomerulonephritis       DOID:2920 MESH:D015432 NCI:C34644 OMIM:305800 UMLS_CUI:C0017662
				spondylometaphyseal dysplasia corner fracture type IDs spondylometaphyseal dysplasia corner fracture type       DOID:0112297 MESH:C535793 OMIM:184255 ORDO:93315 UMLS_CUI:C0432221

Click on a disease name to see all genes associated with that disease.

Mutations,
Alleles, and
Phenotypes

• Phenotype Summary
  72 phenotypes from 12 alleles in 13 genetic backgrounds
  16 phenotypes from multigenic genotypes
  98 phenotype references
  

• All Mutations and Alleles
  73
• Chemically induced (other)
  1
• Endonuclease-mediated
  6
• Gene trapped
  50
• Radiation induced
  1
• Targeted
  15
• Genomic Mutations
  2 involving Fn1
• Incidental Mutations
  Mutagenetix , APF , CvDC
• Find Mice (IMSR)
  130 strains or lines available
• Comparison Matrix
  Gene Expression + Phenotype

Mutants are defective in mesodermal function. Null mutants are embryonic lethal with major patterning and organizational defects. Conditional mutants live and show increased neuronal apoptosis and susceptibility to induced cerebral ischemia.

Gene Ontology
(GO)
Classifications

• All GO Annotations
  90
• GO References
  36

Expression

• Assay Results
  2314
• Tissues
  579
• cDNA Data
  962
• Literature Summary
  393

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

• Other Mouse Links
  Allen Institute
  GENSAT
  GEO
  Expression Atlas
• Other Vertebrate Links
  Xenbase fn1

Sequences &
Gene Models

• All Sequences
  144
• RefSeq
  24
• UniProt
  21
• CCDS
  CCDS15031.1, CCDS78607.1, CCDS78608.1, CCDS78609.1, CCDS78610.1, CCDS78611.1, CCDS78612.1

• Ensembl
  ENSMUSG00000026193 (Evidence)
• NCBI Gene
  14268

Representative Sequences			Length	Strain/Species
genomic	ENSMUSG00000026193	Ensembl Gene Model | MGI Sequence Detail	67681	C57BL/6J
transcript	ENSMUST00000055226	Ensembl | MGI Sequence Detail	8315	Not Applicable
polypeptide	ENSMUSP00000054499	Ensembl | MGI Sequence Detail	2477	Not Applicable

Protein
Information

• UniProt
  21 Sequences
• Protein Ontology
  PR:000007581 fibronectin
  (term hierarchy)
• PDB
  1MFN, 2MFN
• InterPro Domains
  IPR050991 Extracellular Matrix Regulatory Proteins
  IPR000083 Fibronectin, type I
  IPR000562 Fibronectin type II domain
  IPR036943 Fibronectin type II domain superfamily
  IPR003961 Fibronectin type III
  IPR036116 Fibronectin type III superfamily
  IPR013783 Immunoglobulin-like fold
  IPR013806 Kringle-like fold
• GlyGen
  P11276 11 sites, 3 N-linked glycans (5 sites), 1 O-linked glycan (3 sites)

Molecular
Reagents

• All nucleic 1001

  Genomic 3

  cDNA 970

  Primer pair 21

  Other 7

  
  

  Microarray probesets 3

Other
Accession IDs

MGD-MRK-9847, MGD-MRK-9848

References

• Summaries
  All 632

  Developmental Gene Expression 393

  Gene Ontology 36

  Phenotypes 98
• Earliest
  J:134667 Roderick TH, et al., Two radiation-induced chromosomal inversions in mice (Mus musculus). Proc Natl Acad Sci U S A. 1970 Oct;67(2):961-7
• Latest
  J:359192 Siegerist F, et al., The role of the tricellular junction protein ILDR2 in glomerulopathies: Expression patterns and functional insights. iScience. 2024 Dec 20;27(12):111329

TSS for Fn1:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr12148	Chr1:71692321-71692340 (-)	28 bp
Tssr12147	Chr1:71691335-71691338 (-)	1,022 bp
Tssr12146	Chr1:71689749-71689775 (-)	2,597 bp
Tssr12145	Chr1:71688448-71688472 (-)	3,899 bp
Tssr12144	Chr1:71687242-71687264 (-)	5,106 bp
Tssr12143	Chr1:71682235-71682285 (-)	10,099 bp
Tssr12142	Chr1:71681239-71681265 (-)	11,107 bp
Tssr12141	Chr1:71681181-71681197 (-)	11,170 bp
Tssr12140	Chr1:71680430-71680473 (-)	11,907 bp
Tssr12139	Chr1:71679563-71679577 (-)	12,789 bp
Tssr12138	Chr1:71677696-71677748 (-)	14,637 bp
Tssr12137	Chr1:71677664-71677686 (-)	14,684 bp
Tssr12136	Chr1:71676494-71676505 (-)	15,859 bp
Tssr12135	Chr1:71676438-71676449 (-)	15,915 bp
Tssr12134	Chr1:71671264-71671304 (-)	21,075 bp
Tssr12133	Chr1:71671235-71671254 (-)	21,114 bp
Tssr12132	Chr1:71668543-71668575 (-)	23,800 bp
Tssr12131	Chr1:71667629-71667650 (-)	24,719 bp
Tssr12130	Chr1:71667598-71667611 (-)	24,754 bp
Tssr12129	Chr1:71667260-71667289 (-)	25,084 bp
Tssr12128	Chr1:71666506-71666521 (-)	25,845 bp
Tssr12127	Chr1:71666438-71666492 (-)	25,894 bp
Tssr12126	Chr1:71665389-71665410 (-)	26,959 bp
Tssr12125	Chr1:71665198-71665223 (-)	27,148 bp
Tssr12124	Chr1:71663303-71663319 (-)	29,048 bp
Tssr12123	Chr1:71658636-71658656 (-)	33,713 bp
Tssr12122	Chr1:71657784-71657797 (-)	34,568 bp
Tssr12121	Chr1:71651716-71651764 (-)	40,619 bp
Tssr12120	Chr1:71651660-71651684 (-)	40,687 bp
Tssr12119	Chr1:71648662-71648707 (-)	43,674 bp
Tssr12118	Chr1:71647137-71647160 (-)	45,210 bp
Tssr12117	Chr1:71646016-71646032 (-)	46,335 bp
Tssr12116	Chr1:71645975-71646009 (-)	46,367 bp
Tssr12115	Chr1:71645942-71645960 (-)	46,408 bp
Tssr12114	Chr1:71645123-71645145 (-)	47,225 bp
Tssr12113	Chr1:71643000-71643012 (-)	49,353 bp
Tssr12112	Chr1:71641540-71641561 (-)	50,808 bp
Tssr12111	Chr1:71640401-71640453 (-)	51,932 bp
Tssr12110	Chr1:71639574-71639616 (-)	52,764 bp
Tssr12109	Chr1:71639496-71639526 (-)	52,848 bp
Tssr12108	Chr1:71636596-71636610 (-)	55,756 bp
Tssr12107	Chr1:71634883-71634913 (-)	57,461 bp
Tssr12106	Chr1:71632297-71632318 (-)	60,051 bp
Tssr12105	Chr1:71632280-71632296 (-)	60,071 bp
Tssr12104	Chr1:71629971-71629998 (-)	62,374 bp
Tssr12103	Chr1:71626085-71626105 (-)	66,264 bp
Tssr12102	Chr1:71625383-71625392 (-)	66,971 bp
Tssr12101	Chr1:71624717-71624749 (-)	67,626 bp

Fn1 is Candidate Gene for:

QTL	Genetic Location*	Genome Location (GRCm39)	Reference	QTL Note
Insq2	Chr1, syntenic		J:99477	Authors used novel data mining tool ExQuest to identify novel candidate genes for existing diabesity QTLs. Next, candidate gene expression in the liver, adipose, and pancreas of diabesity-prone Tally Ho mice and diabesity-resistant C57BL/6J mice was assessed by quantitative PCR analysis. Several potential candidate genes, some with no previous association to diabesity QTLs, were identified. Since QTL intervals may be large and could contain hundreds or thousands of potential candidate genes, this method allows researchers to focus on those with strong potential as well as identify novel candidate genes. A potential candidate gene for Obq2 at 15 cM on mouse Chromosome 1 as identified by ExQuest is Gsta3. For QTLs Obq7 (28.7 cM), Wt6q1 (27 cM), Insq2 (36cM), and Insq6 (37 cM), potential candidate genes Aox1 (23.2 cM), Fn1 (36.1 cM), Pecr, Igfbp2 (36.1 cM), Plcd4 (39.2 cM), Scg2 (43.6 cM), Irs1, and Inpp5d (57 cM) were identified. For QTL Nidd6 (77 cM), potential candidate gene Qscn6 was identified. For QTL Obq9 (88.4 cM), potential candidate genes Fmo1, Fmo3, and Apoa2 (92.6 cM) were identified. For QTL Wt6q2 (108 cM), potential candidate gene Hsd11b1 was identified.
Insq6	Chr1, 38.01 cM	Chr1:73726922-73727077	J:99477	Authors used novel data mining tool ExQuest to identify novel candidate genes for existing diabesity QTLs. Next, candidate gene expression in the liver, adipose, and pancreas of diabesity-prone Tally Ho mice and diabesity-resistant C57BL/6J mice was assessed by quantitative PCR analysis. Several potential candidate genes, some with no previous association to diabesity QTLs, were identified. Since QTL intervals may be large and could contain hundreds or thousands of potential candidate genes, this method allows researchers to focus on those with strong potential as well as identify novel candidate genes. A potential candidate gene for Obq2 at 15 cM on mouse Chromosome 1 as identified by ExQuest is Gsta3. For QTLs Obq7 (28.7 cM), Wt6q1 (27 cM), Insq2 (36cM), and Insq6 (37 cM), potential candidate genes Aox1 (23.2 cM), Fn1 (36.1 cM), Pecr, Igfbp2 (36.1 cM), Plcd4 (39.2 cM), Scg2 (43.6 cM), Irs1, and Inpp5d (57 cM) were identified. For QTL Nidd6 (77 cM), potential candidate gene Qscn6 was identified. For QTL Obq9 (88.4 cM), potential candidate genes Fmo1, Fmo3, and Apoa2 (92.6 cM) were identified. For QTL Wt6q2 (108 cM), potential candidate gene Hsd11b1 was identified.
Nidd6	Chr1, 65.11 cM		J:99477	Authors used novel data mining tool ExQuest to identify novel candidate genes for existing diabesity QTLs. Next, candidate gene expression in the liver, adipose, and pancreas of diabesity-prone Tally Ho mice and diabesity-resistant C57BL/6J mice was assessed by quantitative PCR analysis. Several potential candidate genes, some with no previous association to diabesity QTLs, were identified. Since QTL intervals may be large and could contain hundreds or thousands of potential candidate genes, this method allows researchers to focus on those with strong potential as well as identify novel candidate genes. A potential candidate gene for Obq2 at 15 cM on mouse Chromosome 1 as identified by ExQuest is Gsta3. For QTLs Obq7 (28.7 cM), Wt6q1 (27 cM), Insq2 (36cM), and Insq6 (37 cM), potential candidate genes Aox1 (23.2 cM), Fn1 (36.1 cM), Pecr, Igfbp2 (36.1 cM), Plcd4 (39.2 cM), Scg2 (43.6 cM), Irs1, and Inpp5d (57 cM) were identified. For QTL Nidd6 (77 cM), potential candidate gene Qscn6 was identified. For QTL Obq9 (88.4 cM), potential candidate genes Fmo1, Fmo3, and Apoa2 (92.6 cM) were identified. For QTL Wt6q2 (108 cM), potential candidate gene Hsd11b1 was identified.
Obq2	Chr1, 6.50 cM	Chr1:20941620-20941887	J:99477	Authors used novel data mining tool ExQuest to identify novel candidate genes for existing diabesity QTLs. Next, candidate gene expression in the liver, adipose, and pancreas of diabesity-prone Tally Ho mice and diabesity-resistant C57BL/6J mice was assessed by quantitative PCR analysis. Several potential candidate genes, some with no previous association to diabesity QTLs, were identified. Since QTL intervals may be large and could contain hundreds or thousands of potential candidate genes, this method allows researchers to focus on those with strong potential as well as identify novel candidate genes. A potential candidate gene for Obq2 at 15 cM on mouse Chromosome 1 as identified by ExQuest is Gsta3. For QTLs Obq7 (28.7 cM), Wt6q1 (27 cM), Insq2 (36cM), and Insq6 (37 cM), potential candidate genes Aox1 (23.2 cM), Fn1 (36.1 cM), Pecr, Igfbp2 (36.1 cM), Plcd4 (39.2 cM), Scg2 (43.6 cM), Irs1, and Inpp5d (57 cM) were identified. For QTL Nidd6 (77 cM), potential candidate gene Qscn6 was identified. For QTL Obq9 (88.4 cM), potential candidate genes Fmo1, Fmo3, and Apoa2 (92.6 cM) were identified. For QTL Wt6q2 (108 cM), potential candidate gene Hsd11b1 was identified.
Obq7	Chr1, 33.31 cM		J:99477	Authors used novel data mining tool ExQuest to identify novel candidate genes for existing diabesity QTLs. Next, candidate gene expression in the liver, adipose, and pancreas of diabesity-prone Tally Ho mice and diabesity-resistant C57BL/6J mice was assessed by quantitative PCR analysis. Several potential candidate genes, some with no previous association to diabesity QTLs, were identified. Since QTL intervals may be large and could contain hundreds or thousands of potential candidate genes, this method allows researchers to focus on those with strong potential as well as identify novel candidate genes. A potential candidate gene for Obq2 at 15 cM on mouse Chromosome 1 as identified by ExQuest is Gsta3. For QTLs Obq7 (28.7 cM), Wt6q1 (27 cM), Insq2 (36cM), and Insq6 (37 cM), potential candidate genes Aox1 (23.2 cM), Fn1 (36.1 cM), Pecr, Igfbp2 (36.1 cM), Plcd4 (39.2 cM), Scg2 (43.6 cM), Irs1, and Inpp5d (57 cM) were identified. For QTL Nidd6 (77 cM), potential candidate gene Qscn6 was identified. For QTL Obq9 (88.4 cM), potential candidate genes Fmo1, Fmo3, and Apoa2 (92.6 cM) were identified. For QTL Wt6q2 (108 cM), potential candidate gene Hsd11b1 was identified.
Obq9	Chr1, 74.68 cM		J:99477	Authors used novel data mining tool ExQuest to identify novel candidate genes for existing diabesity QTLs. Next, candidate gene expression in the liver, adipose, and pancreas of diabesity-prone Tally Ho mice and diabesity-resistant C57BL/6J mice was assessed by quantitative PCR analysis. Several potential candidate genes, some with no previous association to diabesity QTLs, were identified. Since QTL intervals may be large and could contain hundreds or thousands of potential candidate genes, this method allows researchers to focus on those with strong potential as well as identify novel candidate genes. A potential candidate gene for Obq2 at 15 cM on mouse Chromosome 1 as identified by ExQuest is Gsta3. For QTLs Obq7 (28.7 cM), Wt6q1 (27 cM), Insq2 (36cM), and Insq6 (37 cM), potential candidate genes Aox1 (23.2 cM), Fn1 (36.1 cM), Pecr, Igfbp2 (36.1 cM), Plcd4 (39.2 cM), Scg2 (43.6 cM), Irs1, and Inpp5d (57 cM) were identified. For QTL Nidd6 (77 cM), potential candidate gene Qscn6 was identified. For QTL Obq9 (88.4 cM), potential candidate genes Fmo1, Fmo3, and Apoa2 (92.6 cM) were identified. For QTL Wt6q2 (108 cM), potential candidate gene Hsd11b1 was identified.
Wt6q1	Chr1, syntenic		J:99477	Authors used novel data mining tool ExQuest to identify novel candidate genes for existing diabesity QTLs. Next, candidate gene expression in the liver, adipose, and pancreas of diabesity-prone Tally Ho mice and diabesity-resistant C57BL/6J mice was assessed by quantitative PCR analysis. Several potential candidate genes, some with no previous association to diabesity QTLs, were identified. Since QTL intervals may be large and could contain hundreds or thousands of potential candidate genes, this method allows researchers to focus on those with strong potential as well as identify novel candidate genes. A potential candidate gene for Obq2 at 15 cM on mouse Chromosome 1 as identified by ExQuest is Gsta3. For QTLs Obq7 (28.7 cM), Wt6q1 (27 cM), Insq2 (36cM), and Insq6 (37 cM), potential candidate genes Aox1 (23.2 cM), Fn1 (36.1 cM), Pecr, Igfbp2 (36.1 cM), Plcd4 (39.2 cM), Scg2 (43.6 cM), Irs1, and Inpp5d (57 cM) were identified. For QTL Nidd6 (77 cM), potential candidate gene Qscn6 was identified. For QTL Obq9 (88.4 cM), potential candidate genes Fmo1, Fmo3, and Apoa2 (92.6 cM) were identified. For QTL Wt6q2 (108 cM), potential candidate gene Hsd11b1 was identified.
Wt6q2	Chr1, syntenic		J:99477	Authors used novel data mining tool ExQuest to identify novel candidate genes for existing diabesity QTLs. Next, candidate gene expression in the liver, adipose, and pancreas of diabesity-prone Tally Ho mice and diabesity-resistant C57BL/6J mice was assessed by quantitative PCR analysis. Several potential candidate genes, some with no previous association to diabesity QTLs, were identified. Since QTL intervals may be large and could contain hundreds or thousands of potential candidate genes, this method allows researchers to focus on those with strong potential as well as identify novel candidate genes. A potential candidate gene for Obq2 at 15 cM on mouse Chromosome 1 as identified by ExQuest is Gsta3. For QTLs Obq7 (28.7 cM), Wt6q1 (27 cM), Insq2 (36cM), and Insq6 (37 cM), potential candidate genes Aox1 (23.2 cM), Fn1 (36.1 cM), Pecr, Igfbp2 (36.1 cM), Plcd4 (39.2 cM), Scg2 (43.6 cM), Irs1, and Inpp5d (57 cM) were identified. For QTL Nidd6 (77 cM), potential candidate gene Qscn6 was identified. For QTL Obq9 (88.4 cM), potential candidate genes Fmo1, Fmo3, and Apoa2 (92.6 cM) were identified. For QTL Wt6q2 (108 cM), potential candidate gene Hsd11b1 was identified.

*cM position of peak correlated region/marker