F7 (coagulation factor VII) - Rat Genome Database

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Gene: F7 (coagulation factor VII) Rattus norvegicus
Analyze
Symbol: F7
Name: coagulation factor VII
RGD ID: 628678
Description: Exhibits endopeptidase activity and signaling receptor binding activity. Is predicted to contribute to serine-type endopeptidase activity. Involved in several processes, including response to anticoagulant; response to peptide hormone; and response to thyroxine. Localizes to extracellular space and vesicle. Used to study asthma; diabetes mellitus; and type 2 diabetes mellitus. Biomarker of several diseases, including bilirubin metabolic disorder; familial hyperlipidemia; hypertension; hypothyroidism; and prothrombin deficiency. Human ortholog(s) of this gene implicated in several diseases, including acute pancreatitis; artery disease (multiple); diabetes mellitus (multiple); factor VII deficiency; and obesity. Orthologous to human F7 (coagulation factor VII); PARTICIPATES IN coagulation cascade pathway; acenocoumarol pharmacodynamics pathway; alteplase pharmacodynamics pathway; INTERACTS WITH (+)-schisandrin B; 17beta-estradiol; acenocoumarol.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: coagulation factor VII (serum prothrombin conversion accelerator); serum prothrombin conversion accelerator
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21676,489,779 - 76,500,636 (-)NCBI
Rnor_6.0 Ensembl1681,824,111 - 81,834,945 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01681,824,610 - 81,834,923 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01681,309,476 - 81,320,833 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41681,348,678 - 81,358,991 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11681,348,942 - 81,359,256 (-)NCBI
Celera1674,296,307 - 74,306,282 (-)NCBICelera
Cytogenetic Map16q12.5NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
Acquired Angioedema  (ISO)
acute pancreatitis  (ISO)
Albuminuria  (ISO)
Angina, Stable  (ISO)
Animal Disease Models  (ISO)
Arterial Thrombosis  (IMP,ISO)
arteriosclerosis  (ISO)
asthma  (IDA)
bilirubin metabolic disorder  (IEP)
blood coagulation disease  (ISO)
breast cancer  (ISO)
Cerebral Hemorrhage  (ISO)
cerebral infarction  (ISO)
Choroidal Neovascularization  (ISO)
Chronic Allograft Dysfunction  (ISO)
colorectal cancer  (ISO)
Colorectal Neoplasms  (ISO)
coronary artery disease  (ISO)
diabetes mellitus  (IDA,IEP,ISO)
diabetic neuropathy  (ISO)
diabetic retinopathy  (ISO)
disseminated intravascular coagulation  (ISO)
Endotoxemia  (IEP,ISO)
Experimental Diabetes Mellitus  (IDA,IEP)
Extrahepatic Portal Vein Obstruction  (IEP)
factor VII deficiency  (ISO)
factor X deficiency  (ISO)
familial hyperlipidemia  (IEP)
Glandular and Epithelial Neoplasms  (IEP)
Hematuria  (ISO)
Hemorrhage  (ISO)
hemorrhagic disease  (ISO)
hereditary angioedema  (ISO)
hyperglycemia  (ISO)
hypertension  (IEP,ISO)
Hypertriglyceridemia  (ISO)
hypothyroidism  (IEP)
Inherited Blood Coagulation Disease  (ISO)
Insulin Resistance  (ISO)
intermediate coronary syndrome  (ISO)
Intestinal Reperfusion Injury  (ISO)
Intracranial Hemorrhage, Traumatic  (ISO)
Intracranial Hemorrhages  (ISO)
kidney disease  (ISO)
myocardial infarction  (ISO)
obesity  (ISO)
ovarian cancer  (ISO)
Postoperative Complications  (ISO)
proteinuria  (ISO)
prothrombin deficiency  (IEP)
Sepsis  (IDA,IEP)
Smoke Inhalation Injury  (IEP)
Subdural Hematoma, Acute  (ISO)
thrombocytopenia  (ISO)
Thromboembolism  (ISO)
type 1 diabetes mellitus  (ISO)
type 2 diabetes mellitus  (IDA,ISO)
Venous Thrombosis  (IMP,ISO)

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
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37. Hart JE Thromb Haemost. 1987 Jun 3;57(3):273-7.
38. Hirano T, etal., Diabetes Res Clin Pract. 1997 Apr;36(1):11-8.
39. Ho CH, etal., Int J Cardiol. 1995 Aug;51(1):79-84.
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44. Karatela RA and Sainani GS, Diabetes Res Clin Pract. 2009 Jun;84(3):e41-4. Epub 2009 Mar 28.
45. Kawai N, etal., Acta Neurochir Suppl. 2006;96:212-7.
46. Kelly LA, etal., Thromb Haemost. 2010 Sep 13;104(6).
47. Kim WM, etal., Blood. 1976 Feb;47(2):275-86.
48. Koizume S, etal., Mol Cancer Res. 2009 Dec;7(12):1928-36. doi: 10.1158/1541-7786.MCR-09-0372. Epub 2009 Dec 8.
49. Lam KS, etal., Diabetologia. 1998 Jul;41(7):760-6.
50. Laudes IJ, etal., Am J Pathol. 2002 May;160(5):1867-75.
51. Lauritzen B, etal., J Thromb Haemost. 2009 Apr;7(4):651-7. doi: 10.1111/j.1538-7836.2009.03287.x. Epub 2009 Jan 19.
52. Lee P, etal., Diabet Med. 1993 Mar;10(2):122-8.
53. Lindman AS, etal., Thromb Haemost. 2005 Jul;94(1):226-7.
54. Lovejoy JC, etal., Int J Obes Relat Metab Disord. 2003 Oct;27(10):1242-9.
55. Lu F, etal., Invest Ophthalmol Vis Sci. 2009 Aug;50(8):3890-6. Epub 2009 Apr 8.
56. Marchetti G, etal., Hum Genet. 1992 Jul;89(5):497-502.
57. Matsuura M, etal., J Toxicol Sci. 1989 Aug;14(3):165-80.
58. Matsuura M, etal., Jpn J Pharmacol. 1988 Mar;46(3):303-10.
59. May H, etal., Zhongguo Shi Yan Xue Ye Xue Za Zhi. 2008 Feb;16(1):181-4.
60. MGD data from the GO Consortium
61. Mori Y, etal., Endocr J. 2003 Oct;50(5):603-11.
62. Nakanishi K, etal., J Pathol. 1997 Mar;181(3):338-46.
63. Negrev N, etal., Eur J Pharmacol. 1995 Apr 24;277(2-3):145-9.
64. Negrev N, etal., J Biol Regul Homeost Agents. 2011 Jan-Mar;25(1):21-6.
65. Negrev NN, etal., Int J Immunopathol Pharmacol. 2008 Jan-Mar;21(1):221-6.
66. Nobukata H, etal., Metabolism. 2000 Jul;49(7):912-9.
67. Nobukata H, etal., Thromb Res. 2000 Jun 15;98(6):507-16.
68. Nobukata H, etal., Toxicol Lett. 1999 Jan 11;104(1-2):93-101.
69. Norris LA, Best Pract Res Clin Obstet Gynaecol. 2003 Jun;17(3):369-83.
70. Ohaeri OC and Adoga GI, Biosci Rep. 2006 Feb;26(1):1-6.
71. Ohishi T, etal., J Toxicol Sci. 2010 Apr;35(2):189-96.
72. Olsen AK, etal., J Nutr. 2002 Mar;132(3):347-50.
73. OMIM Disease Annotation Pipeline
74. Onody A, etal., FEBS Lett. 2003 Feb 11;536(1-3):35-40.
75. Ossei-Gerning N, etal., Thromb Haemost. 1998 Apr;79(4):736-40.
76. Osterholm C, etal., Am J Transplant. 2001 May;1(1):29-37.
77. Petrovic D, etal., Ann Genet. 2001 Jan-Mar;44(1):33-6.
78. Pipeline to import KEGG annotations from KEGG into RGD
79. Pipeline to import SMPDB annotations from SMPDB into RGD
80. Reed MD, etal., Inhal Toxicol. 2004 Apr;16(4):177-93.
81. RGD automated data pipeline
82. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
83. RGD automated import pipeline for gene-chemical interactions
84. RGD comprehensive gene curation
85. Rosen ED, etal., Nature 1997 Nov 20;390(6657):290-4.
86. Scharrer I Haemophilia. 1999 Jul;5(4):253-9.
87. Schlunk F, etal., Stroke. 2012 Jan;43(1):246-9. doi: 10.1161/STROKEAHA.111.629360. Epub 2011 Oct 13.
88. Seetharam S, etal., Thromb Res. 2003 Feb 15;109(4):225-31.
89. Sen MC, etal., Indian J Hematol Blood Transfus. 2016 Mar;32(1):87-91. doi: 10.1007/s12288-015-0517-2. Epub 2015 Feb 15.
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Additional References at PubMed
PMID:8632006   PMID:17991872   PMID:18612547   PMID:24998411  


Genomics

Comparative Map Data
F7
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21676,489,779 - 76,500,636 (-)NCBI
Rnor_6.0 Ensembl1681,824,111 - 81,834,945 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01681,824,610 - 81,834,923 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01681,309,476 - 81,320,833 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41681,348,678 - 81,358,991 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11681,348,942 - 81,359,256 (-)NCBI
Celera1674,296,307 - 74,306,282 (-)NCBICelera
Cytogenetic Map16q12.5NCBI
F7
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl13113,105,788 - 113,120,685 (+)EnsemblGRCh38hg38GRCh38
GRCh38.p13 Ensembl13113,105,788 - 113,120,681 (+)EnsemblGRCh38hg38GRCh38
GRCh3813113,105,773 - 113,120,685 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh3713113,760,102 - 113,774,999 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 3613112,808,106 - 112,822,996 (+)NCBINCBI36hg18NCBI36
Build 3413112,808,105 - 112,822,346NCBI
Celera1394,585,687 - 94,600,980 (+)NCBI
Cytogenetic Map13q34NCBI
HuRef1394,198,534 - 94,213,700 (+)NCBIHuRef
CHM1_113113,728,824 - 113,743,117 (+)NCBICHM1_1
F7
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39813,075,499 - 13,085,809 (+)NCBIGRCm39mm39
GRCm39 Ensembl813,076,034 - 13,085,809 (+)Ensembl
GRCm38813,025,506 - 13,035,809 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl813,026,034 - 13,035,809 (+)EnsemblGRCm38mm10GRCm38
MGSCv37813,026,034 - 13,035,809 (+)NCBIGRCm37mm9NCBIm37
MGSCv36813,026,023 - 13,035,786 (+)NCBImm8
Celera813,193,833 - 13,203,593 (+)NCBICelera
Cytogenetic Map8A1.1NCBI
cM Map85.73NCBI
F7
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955404680,594 - 693,665 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955404685,170 - 692,797 (-)NCBIChiLan1.0ChiLan1.0
F7
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.113113,315,868 - 113,329,995 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl13113,315,868 - 113,329,995 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01394,246,694 - 94,261,133 (+)NCBIMhudiblu_PPA_v0panPan3
F7
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12260,572,459 - 60,582,743 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2260,571,822 - 60,597,024 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2260,285,105 - 60,295,147 (+)NCBI
ROS_Cfam_1.02261,197,920 - 61,208,435 (+)NCBI
UMICH_Zoey_3.12260,696,588 - 60,706,712 (+)NCBI
UNSW_CanFamBas_1.02260,698,754 - 60,708,987 (+)NCBI
UU_Cfam_GSD_1.02260,729,611 - 60,740,074 (+)NCBI
F7
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404945195,436,780 - 195,446,532 (+)NCBI
SpeTri2.0NW_004936472505,751 - 515,375 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
F7
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1178,512,158 - 78,518,671 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11178,512,389 - 78,518,668 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21186,217,112 - 86,223,394 (-)NCBISscrofa10.2Sscrofa10.2susScr3
F7
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1391,109,864 - 91,122,707 (+)NCBI
ChlSab1.1 Ensembl391,110,380 - 91,123,327 (+)Ensembl
F7
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624793780,057 - 788,105 (-)NCBI


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1600378Arunc4Aerobic running capacity QTL 40.03exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)16109005486162972Rat
1578768Stresp22Stress response QTL 222.8thymus mass (VT:0004954)thymus wet weight (CMO:0000855)163900002184000021Rat
2300163Bmd64Bone mineral density QTL 645.30.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)164151271086512710Rat
2293690Bss45Bone structure and strength QTL 455.130.0001lumbar vertebra morphology trait (VT:0010494)lumbar vertebra cortical cross-sectional area (CMO:0001690)164151271086512710Rat
7205510Activ5Activity QTL 53.780.00028locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)164655818890668790Rat
7411648Foco22Food consumption QTL 22150.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)165781635790668790Rat
8694429Bw164Body weight QTL 16450.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)165781635790668790Rat
8694364Abfw7Abdominal fat weight QTL 712.220.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)165781635790668790Rat
631525Pia14Pristane induced arthritis QTL 144.4joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)165928577589248943Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:95
Count of miRNA genes:88
Interacting mature miRNAs:93
Transcripts:ENSRNOT00000037806
Prediction methods:Microtar, Miranda, Rnahybrid
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


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 23 23 23
Low 2 22 18 13 18 1 1 5 2 1
Below cutoff 7 12 6 3 3 8 22 30 7 3

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000037806   ⟹   ENSRNOP00000038466
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1681,824,111 - 81,834,945 (-)Ensembl
RefSeq Acc Id: NM_152846   ⟹   NP_690059
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21676,490,275 - 76,500,588 (-)NCBI
Rnor_6.01681,824,610 - 81,834,923 (-)NCBI
Rnor_5.01681,309,476 - 81,320,833 (-)NCBI
RGSC_v3.41681,348,678 - 81,358,991 (-)RGD
Celera1674,296,307 - 74,306,282 (-)RGD
Sequence:
RefSeq Acc Id: XM_039094239   ⟹   XP_038950167
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21676,489,779 - 76,500,636 (-)NCBI
RefSeq Acc Id: XM_039094240   ⟹   XP_038950168
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21676,490,589 - 76,500,630 (-)NCBI
RefSeq Acc Id: XM_039094241   ⟹   XP_038950169
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21676,490,589 - 76,500,630 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_690059   ⟸   NM_152846
- Peptide Label: precursor
- UniProtKB: Q8K3U6 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000038466   ⟸   ENSRNOT00000037806
RefSeq Acc Id: XP_038950167   ⟸   XM_039094239
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038950169   ⟸   XM_039094241
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038950168   ⟸   XM_039094240
- Peptide Label: isoform X2
Protein Domains
EGF-like   Gla   Peptidase S1

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13700237
Promoter ID:EPDNEW_R10760
Type:multiple initiation site
Name:F7_1
Description:coagulation factor VII
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01681,834,932 - 81,834,992EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:628678 AgrOrtholog
Ensembl Genes ENSRNOG00000032737 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000038466 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000037806 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 2.40.10.10 UniProtKB/Swiss-Prot
  4.10.740.10 UniProtKB/Swiss-Prot
InterPro Coagulation_fac-like_Gla_dom UniProtKB/Swiss-Prot
  EGF-like_Ca-bd_dom UniProtKB/Swiss-Prot
  EGF-like_dom UniProtKB/Swiss-Prot
  EGF-type_Asp/Asn_hydroxyl_site UniProtKB/Swiss-Prot
  EGF_Ca-bd_CS UniProtKB/Swiss-Prot
  GLA-like_dom_SF UniProtKB/Swiss-Prot
  GLA_domain UniProtKB/Swiss-Prot
  IPR033190 UniProtKB/Swiss-Prot
  Pept_S1A_FX UniProtKB/Swiss-Prot
  Peptidase_S1_PA UniProtKB/Swiss-Prot
  Peptidase_S1_PA_chymotrypsin UniProtKB/Swiss-Prot
  Peptidase_S1A UniProtKB/Swiss-Prot
  Trypsin_dom UniProtKB/Swiss-Prot
  TRYPSIN_HIS UniProtKB/Swiss-Prot
  TRYPSIN_SER UniProtKB/Swiss-Prot
KEGG Report rno:260320 UniProtKB/Swiss-Prot
NCBI Gene 260320 ENTREZGENE
PANTHER PTHR24278:SF26 UniProtKB/Swiss-Prot
Pfam EGF UniProtKB/Swiss-Prot
  Gla UniProtKB/Swiss-Prot
  Trypsin UniProtKB/Swiss-Prot
PharmGKB F7 RGD
PhenoGen F7 PhenoGen
PIRSF Factor_X UniProtKB/Swiss-Prot
PRINTS CHYMOTRYPSIN UniProtKB/Swiss-Prot
  GLABLOOD UniProtKB/Swiss-Prot
PROSITE ASX_HYDROXYL UniProtKB/Swiss-Prot
  EGF_1 UniProtKB/Swiss-Prot
  EGF_3 UniProtKB/Swiss-Prot
  EGF_CA UniProtKB/Swiss-Prot
  GLA_1 UniProtKB/Swiss-Prot
  GLA_2 UniProtKB/Swiss-Prot
  TRYPSIN_DOM UniProtKB/Swiss-Prot
  TRYPSIN_HIS UniProtKB/Swiss-Prot
  TRYPSIN_SER UniProtKB/Swiss-Prot
SMART EGF UniProtKB/Swiss-Prot
  EGF_CA UniProtKB/Swiss-Prot
  GLA UniProtKB/Swiss-Prot
  Tryp_SPc UniProtKB/Swiss-Prot
Superfamily-SCOP SSF50494 UniProtKB/Swiss-Prot
  SSF57630 UniProtKB/Swiss-Prot
UniProt FA7_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-01-20 F7  coagulation factor VII  F7  coagulation factor VII  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2016-01-20 F7  coagulation factor VII  F7  coagulation factor VII (serum prothrombin conversion accelerator)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-10-17 F7  coagulation factor VII (serum prothrombin conversion accelerator)  F7  coagulation factor VII  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 F7  coagulation factor VII      Symbol and Name status set to approved 1299863 APPROVED
2003-02-27 F7  coagulation factor VII      Symbol and Name status set to provisional 70820 PROVISIONAL