Ifnb1 (interferon beta 1) - Rat Genome Database

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Gene: Ifnb1 (interferon beta 1) Rattus norvegicus
Analyze
Symbol: Ifnb1
Name: interferon beta 1
RGD ID: 2865
Description: Predicted to enable chloramphenicol O-acetyltransferase activity; cytokine activity; and type I interferon receptor binding activity. Involved in several processes, including cellular response to organic cyclic compound; negative regulation of blood-brain barrier permeability; and regulation of gene expression. Predicted to be active in extracellular space. Used to study proteinuria and transient cerebral ischemia. Human ortholog(s) of this gene implicated in COVID-19; cerebral infarction; multiple sclerosis; and retinoblastoma. Orthologous to human IFNB1 (interferon beta 1); PARTICIPATES IN Chagas disease pathway; cytokine mediated signaling pathway; hepatitis C pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; ammonium chloride; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: If1da1; IFN-beta; Ifnb; interferon 1da1; interferon beta; Interferon beta 1 fibroblast; interferon beta 1, fibroblast; interferon, beta 1; Interferon, beta 1, fibroblast
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr85108,066,650 - 108,067,487 (-)NCBIGRCr8
mRatBN7.25103,020,758 - 103,021,595 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5103,020,969 - 103,021,523 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx5105,375,610 - 105,376,164 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.05107,166,057 - 107,166,611 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.05107,226,739 - 107,227,293 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.05106,865,192 - 106,865,746 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5106,865,192 - 106,865,746 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05110,843,902 - 110,844,456 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45107,837,628 - 107,838,182 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.15107,842,853 - 107,843,408 (-)NCBI
Celera5100,095,218 - 100,095,772 (+)NCBICelera
RH 3.4 Map5746.3RGD
Cytogenetic Map5q32NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(S)-nicotine  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4,6-trinitrobenzenesulfonic acid  (ISO)
2-aminopurine  (ISO)
3-acetyldeoxynivalenol  (ISO)
3-methylcholanthrene  (ISO)
3-phenylprop-2-enal  (ISO)
4-hydroxynon-2-enal  (ISO)
4-nitroquinoline N-oxide  (ISO)
4-octylphenol  (ISO)
4-phenylbutyric acid  (ISO)
5-aza-2'-deoxycytidine  (ISO)
5-fluorouracil  (ISO)
acetaldehyde  (ISO)
actinomycin D  (ISO)
alachlor  (ISO)
all-trans-retinoic acid  (ISO)
allopurinol  (ISO)
alpha-D-galactose  (ISO)
aluminium atom  (ISO)
aluminium(0)  (ISO)
alvocidib  (ISO)
amlexanox  (ISO)
ammonium chloride  (EXP)
apocynin  (ISO)
aripiprazole  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
atrazine  (ISO)
azathioprine  (ISO)
benomyl  (ISO)
bisphenol A  (EXP,ISO)
cannabidiol  (ISO)
carbaryl  (ISO)
chaetoglobosin A  (ISO)
chlordecone  (ISO)
chloroquine  (ISO)
chlorpromazine  (ISO)
Cirsimarin  (ISO)
copper atom  (EXP,ISO)
copper(0)  (EXP,ISO)
cortisol  (ISO)
cudratricusxanthone A  (ISO)
curcumin  (ISO)
delta-tocotrienol  (ISO)
deoxynivalenol  (ISO)
dexamethasone  (ISO)
diarsenic trioxide  (ISO)
dicofol  (ISO)
diethyl phthalate  (ISO)
disodium selenite  (ISO)
divanadium pentaoxide  (ISO)
ethanol  (EXP,ISO)
galactose  (ISO)
gentamycin  (EXP)
hexadecanoic acid  (ISO)
hydrogen peroxide  (ISO)
hydroxychloroquine  (ISO)
ifosfamide  (ISO)
linuron  (ISO)
lipopolysaccharide  (EXP,ISO)
luteolin  (ISO)
malathion  (ISO)
mangiferin  (ISO)
mercury dichloride  (ISO)
metam  (ISO)
methotrexate  (EXP)
methoxychlor  (ISO)
microcystin-LR  (ISO)
Mitotane  (ISO)
N-methyl-4-phenylpyridinium  (ISO)
N-nitrosodiethylamine  (ISO)
N-nitrosodimethylamine  (ISO)
nickel sulfate  (ISO)
nicotine  (ISO)
nimesulide  (ISO)
nitric oxide  (ISO)
Nivalenol  (ISO)
nonanoic acid  (ISO)
Nonylphenol  (ISO)
Octachlorostyrene  (ISO)
ozone  (ISO)
paraquat  (ISO)
pentachlorophenol  (ISO)
pitavastatin  (ISO)
pitavastatin(1-)  (ISO)
poly(I:C)  (EXP,ISO)
pravastatin  (ISO)
pristane  (EXP)
progesterone  (ISO)
quercetin  (ISO)
reactive oxygen species  (ISO)
resiquimod  (ISO)
resveratrol  (ISO)
ruxolitinib  (ISO)
S-(1,2-dichlorovinyl)-L-cysteine  (ISO)
scoparone  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
simazine  (ISO)
sodium arsenite  (ISO)
tamoxifen  (ISO)
temozolomide  (ISO)
tetrachloromethane  (ISO)
toluene 2,4-diisocyanate  (ISO)
trametinib  (ISO)
trichloroethene  (EXP)
Triptolide  (ISO)
vadimezan  (ISO)
wortmannin  (ISO)
zinc protoporphyrin  (ISO)
ziram  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
adaptive immune response  (IBA,ISO)
B cell activation involved in immune response  (ISO)
B cell differentiation  (IBA)
B cell proliferation  (IBA,ISO)
cell surface receptor signaling pathway via JAK-STAT  (ISO)
cellular response to dexamethasone stimulus  (ISO)
cellular response to dsDNA  (IEP)
cellular response to dsRNA  (IEP,ISO)
cellular response to exogenous dsRNA  (IEP)
cellular response to interferon-beta  (ISO)
cellular response to lipopolysaccharide  (IEP)
cellular response to virus  (IEP,ISO)
cytokine-mediated signaling pathway  (IBA,ISO)
defense response to bacterium  (ISO)
defense response to virus  (ISO,ISS)
endoplasmic reticulum unfolded protein response  (IEP)
humoral immune response  (IBA,ISO)
innate immune response  (ISO)
macrophage activation involved in immune response  (IDA)
natural killer cell activation involved in immune response  (IBA)
negative regulation of blood-brain barrier permeability  (IDA)
negative regulation of cell adhesion molecule production  (IDA)
negative regulation of cell population proliferation  (IDA)
negative regulation of immunoglobulin production  (IDA)
negative regulation of Lewy body formation  (ISO,ISS)
negative regulation of matrix metallopeptidase secretion  (IDA)
negative regulation of mononuclear cell migration  (IDA)
negative regulation of neuroinflammatory response  (IDA)
negative regulation of osteoclast differentiation  (ISO)
negative regulation of T cell differentiation  (ISO)
negative regulation of T-helper 2 cell cytokine production  (ISO)
negative regulation of type II interferon production  (IDA)
negative regulation of viral genome replication  (ISO)
neuron cellular homeostasis  (ISO,ISS)
positive regulation of apoptotic signaling pathway  (ISO)
positive regulation of autophagy  (ISO,ISS)
positive regulation of peptidyl-serine phosphorylation of STAT protein  (IBA,ISO)
positive regulation of transcription by RNA polymerase II  (ISO)
positive regulation of transforming growth factor beta production  (IDA)
response to exogenous dsRNA  (IBA,ISO)
T cell activation involved in immune response  (IBA)
type I interferon-mediated signaling pathway  (ISO)

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Dichotomy between survival and lytic gene expression in RNase L- and PKR-deficient mice transduced with an adenoviral vector expressing murine IFN-beta following ocular HSV-1 infection. Al-Khatib K, etal., Exp Eye Res. 2005 Feb;80(2):167-73. doi: 10.1016/j.exer.2004.08.026.
2. Impaired autoimmune T helper 17 cell responses following DNA vaccination against rat experimental autoimmune encephalomyelitis. Andersson A, etal., PLoS One. 2008;3(11):e3682. Epub 2008 Nov 10.
3. Type I IFN-beta gene therapy suppresses cardiac CD8+ T-cell infiltration during autoimmune myocarditis. Bartlett EJ, etal., Immunol Cell Biol. 2004 Apr;82(2):119-26. doi: 10.1046/j.0818-9641.2004.01234.x.
4. Protective role for interferon-beta in coxsackievirus B3 infection. Deonarain R, etal., Circulation. 2004 Dec 7;110(23):3540-3. doi: 10.1161/01.CIR.0000136824.73458.20. Epub 2004 Jul 12.
5. Double-stranded RNA induces pancreatic beta-cell apoptosis by activation of the toll-like receptor 3 and interferon regulatory factor 3 pathways. Dogusan Z, etal., Diabetes. 2008 May;57(5):1236-45. Epub 2008 Jan 25.
6. Interferon-beta directly influences monocyte infiltration into the central nervous system. Floris S, etal., J Neuroimmunol. 2002 Jun;127(1-2):69-79. doi: 10.1016/s0165-5728(02)00098-x.
7. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
8. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
9. Effect of immunomodulation with human interferon-beta on early functional recovery from experimental spinal cord injury. Gok B, etal., Spine (Phila Pa 1976). 2007 Apr 15;32(8):873-80. doi: 10.1097/01.brs.0000259841.40358.8f.
10. Mitochondrial DNA drives noncanonical inflammation activation via cGAS-STING signaling pathway in retinal microvascular endothelial cells. Guo Y, etal., Cell Commun Signal. 2020 Oct 28;18(1):172. doi: 10.1186/s12964-020-00637-3.
11. Association of genetic polymorphisms in chromosome 9p21 with risk of ischemic stroke. Han X, etal., Cytokine. 2020 Mar;127:154921. doi: 10.1016/j.cyto.2019.154921. Epub 2019 Dec 3.
12. Thyrocytes express a functional toll-like receptor 3: overexpression can be induced by viral infection and reversed by phenylmethimazole and is associated with Hashimoto's autoimmune thyroiditis. Harii N, etal., Mol Endocrinol. 2005 May;19(5):1231-50. Epub 2005 Jan 20.
13. A SARS-CoV-2 Infection Model in Mice Demonstrates Protection by Neutralizing Antibodies. Hassan AO, etal., Cell. 2020 Jun 10. pii: S0092-8674(20)30742-X. doi: 10.1016/j.cell.2020.06.011.
14. Ubiquicidin, a novel murine microbicidal protein present in the cytosolic fraction of macrophages. Hiemstra PS, etal., J Leukoc Biol. 1999 Sep;66(3):423-8.
15. Triple combination of interferon beta-1b, lopinavir-ritonavir, and ribavirin in the treatment of patients admitted to hospital with COVID-19: an open-label, randomised, phase 2 trial. Hung IF, etal., Lancet. 2020 May 30;395(10238):1695-1704. doi: 10.1016/S0140-6736(20)31042-4. Epub 2020 May 10.
16. Acute Respiratory Infection in Human Dipeptidyl Peptidase 4-Transgenic Mice Infected with Middle East Respiratory Syndrome Coronavirus. Iwata-Yoshikawa N, etal., J Virol. 2019 Mar 5;93(6). pii: JVI.01818-18. doi: 10.1128/JVI.01818-18. Print 2019 Mar 15.
17. High-density rat radiation hybrid maps containing over 24,000 SSLPs, genes, and ESTs provide a direct link to the rat genome sequence. Kwitek AE, etal., Genome Res. 2004 Apr;14(4):750-7
18. An essential role for the antiviral endoribonuclease, RNase-L, in antibacterial immunity. Li XL, etal., Proc Natl Acad Sci U S A. 2008 Dec 30;105(52):20816-21. doi: 10.1073/pnas.0807265105. Epub 2008 Dec 15.
19. Interferon-beta inhibits the expression of metalloproteinases in rat glial cell cultures: implications for multiple sclerosis pathogenesis and treatment. Liuzzi GM, etal., Mult Scler. 2004 Jun;10(3):290-7. doi: 10.1191/1352458504ms1016oa.
20. Interferon-beta fails to protect in a model of transient focal stroke. Maier CM, etal., Stroke. 2006 Apr;37(4):1116-9. doi: 10.1161/01.STR.0000208214.46093.d5. Epub 2006 Mar 2.
21. Experimental autoimmune encephalomyelitis in Lewis rats: IFN-beta acts as a tolerogenic adjuvant for induction of neuroantigen-dependent tolerance. Mannie MD, etal., J Immunol. 2009 May 1;182(9):5331-41. doi: 10.4049/jimmunol.0803756.
22. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
23. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
24. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
25. GOA pipeline RGD automated data pipeline
26. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
27. Defining interferon beta response status in multiple sclerosis patients. Rudick RA, etal., Ann Neurol. 2004 Oct;56(4):548-55. doi: 10.1002/ana.20224.
28. The length of treatment determines whether IFN-beta prevents or aggravates experimental autoimmune encephalomyelitis in Lewis rats. Ruuls SR, etal., J Immunol. 1996 Dec 15;157(12):5721-31.
29. PEGylated interferon-beta modulates the acute inflammatory response and recovery when combined with forced exercise following cervical spinal contusion injury. Sandrow-Feinberg HR, etal., Exp Neurol. 2010 Jun;223(2):439-51. doi: 10.1016/j.expneurol.2010.01.009. Epub 2010 Jan 28.
30. Interferon-beta reduces proteinuria in experimental glomerulonephritis. Satchell SC, etal., J Am Soc Nephrol. 2007 Nov;18(11):2875-84. doi: 10.1681/ASN.2006101104. Epub 2007 Oct 17.
31. AAV-mediated local delivery of interferon-beta for the treatment of retinoblastoma in preclinical models. Shih CS, etal., Neuromolecular Med. 2009;11(1):43-52. doi: 10.1007/s12017-009-8059-0. Epub 2009 Mar 22.
32. Endoplasmic reticulum stress and the unfolded protein response are linked to synergistic IFN-beta induction via X-box binding protein 1. Smith JA, etal., Eur J Immunol. 2008 May;38(5):1194-203. doi: 10.1002/eji.200737882.
33. Cloning and expression of murine IFN beta and a TNF antagonist for gene therapy of experimental allergic encephalomyelitis. Triantaphyllopoulos K, etal., Gene Ther. 1998 Feb;5(2):253-63. doi: 10.1038/sj.gt.3300570.
34. Interferon-beta blocks infiltration of inflammatory cells and reduces infarct volume after ischemic stroke in the rat. Veldhuis WB, etal., J Cereb Blood Flow Metab. 2003 Sep;23(9):1029-39. doi: 10.1097/01.WCB.0000080703.47016.B6.
35. Interferon-beta prevents cytokine-induced neutrophil infiltration and attenuates blood-brain barrier disruption. Veldhuis WB, etal., J Cereb Blood Flow Metab. 2003 Sep;23(9):1060-9. doi: 10.1097/01.WCB.0000080701.47016.24.
36. Activation of dopamine D1 receptor decreased NLRP3-mediated inflammation in intracerebral hemorrhage mice. Wang T, etal., J Neuroinflammation. 2018 Jan 4;15(1):2. doi: 10.1186/s12974-017-1039-7.
37. Isolation and expression of rat interferon beta gene and growth-inhibitory effect of its expression on rat glioma cells. Yokoyama S, etal., Biochem Biophys Res Commun 1997 Mar 27;232(3):698-701.
38. Interferon-beta attenuates angiotensin II-accelerated atherosclerosis and vascular remodeling in apolipoprotein E deficient mice. Zhang LN, etal., Atherosclerosis. 2008 Mar;197(1):204-11. doi: 10.1016/j.atherosclerosis.2007.03.019. Epub 2007 Apr 26.
39. IFN-beta suppresses experimental autoimmune neuritis in Lewis rats by inhibiting the migration of inflammatory cells into peripheral nervous tissue. Zou LP, etal., J Neurosci Res. 1999 Apr 15;56(2):123-30. doi: 10.1002/(sici)1097-4547(19990415)56:2<123::aid-jnr2>3.0.co;2-g.
Additional References at PubMed
PMID:10918594   PMID:11337497   PMID:12932356   PMID:14597717   PMID:15240719   PMID:16984225   PMID:17277142   PMID:17442941   PMID:18035482   PMID:18596219   PMID:19008854   PMID:19176627  
PMID:19541371   PMID:20214528   PMID:20554961   PMID:21266579   PMID:21606371   PMID:23872679   PMID:24882218   PMID:26252165   PMID:27129230   PMID:33160814  


Genomics

Comparative Map Data
Ifnb1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr85108,066,650 - 108,067,487 (-)NCBIGRCr8
mRatBN7.25103,020,758 - 103,021,595 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5103,020,969 - 103,021,523 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx5105,375,610 - 105,376,164 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.05107,166,057 - 107,166,611 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.05107,226,739 - 107,227,293 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.05106,865,192 - 106,865,746 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5106,865,192 - 106,865,746 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05110,843,902 - 110,844,456 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45107,837,628 - 107,838,182 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.15107,842,853 - 107,843,408 (-)NCBI
Celera5100,095,218 - 100,095,772 (+)NCBICelera
RH 3.4 Map5746.3RGD
Cytogenetic Map5q32NCBI
IFNB1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38921,077,104 - 21,077,942 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl921,077,104 - 21,077,942 (-)EnsemblGRCh38hg38GRCh38
GRCh37921,077,103 - 21,077,941 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36921,067,104 - 21,067,943 (-)NCBINCBI36Build 36hg18NCBI36
Build 34921,067,103 - 21,067,943NCBI
Celera921,015,373 - 21,016,212 (-)NCBICelera
Cytogenetic Map9p21.3NCBI
HuRef921,040,313 - 21,041,152 (-)NCBIHuRef
CHM1_1921,076,893 - 21,077,732 (-)NCBICHM1_1
T2T-CHM13v2.0921,090,986 - 21,091,824 (-)NCBIT2T-CHM13v2.0
Ifnb1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39488,440,253 - 88,441,083 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl488,440,262 - 88,441,011 (-)EnsemblGRCm39 Ensembl
GRCm38488,522,025 - 88,522,794 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl488,522,025 - 88,522,774 (-)EnsemblGRCm38mm10GRCm38
MGSCv37488,167,929 - 88,168,698 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36487,993,256 - 87,994,025 (-)NCBIMGSCv36mm8
Celera487,037,706 - 87,038,475 (-)NCBICelera
Cytogenetic Map4C4NCBI
cM Map441.91NCBI
Ifnb1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495543423,301,623 - 23,302,304 (-)NCBIChiLan1.0ChiLan1.0
IFNB1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v211103,458,347 - 103,470,724 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan19103,466,363 - 103,476,669 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0920,884,742 - 20,886,317 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1921,540,849 - 21,541,695 (-)NCBIpanpan1.1PanPan1.1panPan2
IFNB1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11140,668,295 - 40,668,855 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1140,668,295 - 40,668,855 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1139,330,806 - 39,331,366 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01141,610,249 - 41,610,809 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1141,610,249 - 41,610,809 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11140,302,366 - 40,302,926 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01140,090,657 - 40,091,217 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01140,726,193 - 40,726,753 (-)NCBIUU_Cfam_GSD_1.0
Ifnb1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947155,066,763 - 155,067,326 (-)NCBIHiC_Itri_2
SpeTri2.0NW_0049366522,736,270 - 2,736,833 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
IFNB1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1201,850,935 - 201,851,495 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11201,850,935 - 201,851,495 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21225,469,554 - 225,470,114 (+)NCBISscrofa10.2Sscrofa10.2susScr3
Pig Cytomap1q23-q27NCBI
Ifnb1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473625,099,061 - 25,099,746 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Ifnb1
1 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:17
Count of miRNA genes:16
Interacting mature miRNAs:17
Transcripts:ENSRNOT00000008224
Prediction methods: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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70212Niddm25Non-insulin dependent diabetes mellitus QTL 253.54blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)51131345958Rat
1576314Eutr1Estrogen induced uterine response QTL 1uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)52138965166875058Rat
634305Mamtr1Mammary tumor resistance QTL 10.0001mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)512789751113558310Rat
2290448Scl54Serum cholesterol level QTL 542.93blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)531663789131345958Rat
1576317Eutr2Estrogen induced uterine response QTL 20.01uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)534730116104251008Rat
2316959Gluco59Glucose level QTL 594.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)534944474113558310Rat
1641912Alcrsp18Alcohol response QTL 18response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)535189153141643988Rat
1549845Scl44Serum cholesterol level QTL 446blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)540128307148607290Rat
1331801Rf33Renal function QTL 334.149kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)543726656129132602Rat
1578766Tcas11Tongue tumor susceptibility QTL 114.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)546711509161317411Rat
1576312Emca8Estrogen-induced mammary cancer QTL 84.1mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)550328551141643988Rat
70189Mcs5Mammary carcinoma susceptibility QTL 510.51mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)555805606132207589Rat
1358895Bp254Blood pressure QTL 2543.60.0003arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)558829236128034027Rat
61426Scl2Serum cholesterol level QTL 27.30.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)559793399143070159Rat
2316957Pur21Proteinuria QTL 216.2urine protein amount (VT:0005160)urine protein level (CMO:0000591)559793528113558156Rat
61393Bp7Blood pressure QTL 74.50.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)560293434161481680Rat
2290005Mcs24Mammary carcinoma susceptibility QTL 24mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)564719390109719390Rat
2306971Anxrr21Anxiety related response QTL 219.47fear/anxiety-related behavior trait (VT:1000241)number of entries into a discrete space in an experimental apparatus (CMO:0000960)566174080124160948Rat
2312671Scl64Serum cholesterol level QTL 640.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)568984307104251008Rat
61380Edpm5Estrogen-dependent pituitary mass QTL 54.50.92pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)568984307104251008Rat
1357396Bw44Body weight QTL 444.19body mass (VT:0001259)body weight (CMO:0000012)568984307104251008Rat
1357402Bw46Body weight QTL 464.47body mass (VT:0001259)body mass index (BMI) (CMO:0000105)568984307104251008Rat
2302381Bw84Body weight QTL 844.47body mass (VT:0001259)body mass index (BMI) (CMO:0000105)568984307104251008Rat
1354598Srn6Serum renin concentration QTL 63.8blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)569540295151018848Rat
1298070Scl18Serum cholesterol level QTL 183.7blood LDL cholesterol amount (VT:0000181)calculated plasma low density lipoprotein cholesterol level (CMO:0001245)579584860124584860Rat
1598846Bp293Blood pressure QTL 2933.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)579584860124584860Rat
1598859Cm66Cardiac mass QTL 662heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)579584860124584860Rat
1302790Scl20Serum cholesterol level QTL 206.40.0001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)582394392166664054Rat
1298086Bp156Blood pressure QTL 156arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)584132602129132602Rat
7411601Foco12Food consumption QTL 1219.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)587468046132468046Rat
7411564Bw135Body weight QTL 1350.001body mass (VT:0001259)body weight gain (CMO:0000420)587468046132468046Rat
7411582Foco3Food consumption QTL 37.50.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)587468046132468046Rat
6903316Bw113Body weight QTL 11320.0103body mass (VT:0001259)body weight (CMO:0000012)587765973132765973Rat
1358889Bp261Blood pressure QTL 2612.86arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)590067849128034027Rat
1358909Kidm25Kidney mass QTL 251.87kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)590067849128034027Rat
631527Tls1T-lymphoma susceptibility QTL 100.001thymus integrity trait (VT:0010555)post-insult time to onset of T-cell lymphoma (CMO:0001907)590450144135450144Rat
61452Ciaa5CIA Autoantibody QTL 53.5blood autoantibody amount (VT:0003725)calculated serum anti-rat type 2 collagen autoantibody titer (CMO:0001281)594858972143070159Rat
1331796Thshl2Thyroid stimulating hormone level QTL 22.3blood thyroid-stimulating hormone amount (VT:0005119)serum thyroid stimulating hormone level (CMO:0001248)597059760147465714Rat
2317753Glom24Glomerulus QTL 243.1kidney glomerulus integrity trait (VT:0010546)kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)597570330136479578Rat
1582212Livw2Liver weight QTL 23.50.0004liver mass (VT:0003402)liver weight to body weight ratio (CMO:0000633)599016066119085810Rat
1358187Emca1Estrogen-induced mammary cancer QTL 14.4mammary gland integrity trait (VT:0010552)post-insult time to mammary tumor formation (CMO:0000345)599216724148607142Rat
1600362Mcs19Mammary carcinoma susceptibility QTL 192.5mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)599485997103690167Rat
7394708Emca11Estrogen-induced mammary cancer QTL 11mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)599753548113061097Rat

Markers in Region
RH94433  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.25103,020,870 - 103,020,967 (+)MAPPERmRatBN7.2
Rnor_6.05106,865,094 - 106,865,190NCBIRnor6.0
Rnor_5.05110,843,804 - 110,843,900UniSTSRnor5.0
RGSC_v3.45107,837,530 - 107,837,626UniSTSRGSC3.4
Celera5100,095,774 - 100,095,870UniSTS
RH 3.4 Map5746.3UniSTS
Cytogenetic Map5q31-q33UniSTS
PMC26775P1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.25103,021,015 - 103,021,601 (+)MAPPERmRatBN7.2
Rnor_6.05106,865,239 - 106,865,824NCBIRnor6.0
Rnor_5.05110,843,949 - 110,844,534UniSTSRnor5.0
RGSC_v3.45107,837,675 - 107,838,260UniSTSRGSC3.4
Celera5100,095,140 - 100,095,725UniSTS
Cytogenetic Map5q31-q33UniSTS


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

circulatory system endocrine system hemolymphoid system nervous system respiratory system
High
Medium
Low 1
Below cutoff 1 3 4 7 3

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000008224   ⟹   ENSRNOP00000008225
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl5103,020,969 - 103,021,523 (-)Ensembl
Rnor_6.0 Ensembl5106,865,192 - 106,865,746 (-)Ensembl
RefSeq Acc Id: NM_019127   ⟹   NP_062000
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr85108,066,650 - 108,067,487 (-)NCBI
mRatBN7.25103,020,758 - 103,021,595 (-)NCBI
Rnor_6.05106,865,192 - 106,865,746 (-)NCBI
Rnor_5.05110,843,902 - 110,844,456 (-)NCBI
RGSC_v3.45107,837,628 - 107,838,182 (-)RGD
Celera5100,095,218 - 100,095,772 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_062000 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein BAA13502 (Get FASTA)   NCBI Sequence Viewer  
  CAB0000194 (Get FASTA)   NCBI Sequence Viewer  
  EDL75998 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000008225
  ENSRNOP00000008225.1
  ENSRNOP00055023605
  ENSRNOP00060019338
  ENSRNOP00065026499
GenBank Protein P70499 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: NP_062000   ⟸   NM_019127
- Peptide Label: precursor
- UniProtKB: P70499 (UniProtKB/Swiss-Prot),   A0A7R8GV74 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000008225   ⟸   ENSRNOT00000008224

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P70499-F1-model_v2 AlphaFold P70499 1-184 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2865 AgrOrtholog
BioCyc Gene G2FUF-40824 BioCyc
Ensembl Genes ENSRNOG00000006268 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOG00055017348 UniProtKB/Swiss-Prot
  ENSRNOG00060014167 UniProtKB/Swiss-Prot
  ENSRNOG00065019667 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000008224 ENTREZGENE
  ENSRNOT00000008224.3 UniProtKB/Swiss-Prot
  ENSRNOT00055029363 UniProtKB/Swiss-Prot
  ENSRNOT00060024229 UniProtKB/Swiss-Prot
  ENSRNOT00065033134 UniProtKB/Swiss-Prot
Gene3D-CATH 1.20.1250.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro 4_helix_cytokine-like_core UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Interferon_alpha/beta/delta UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:24481 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
NCBI Gene 24481 ENTREZGENE
PANTHER INTERFERON BETA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR11691 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Interferon UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Ifnb1 PhenoGen
PRINTS INTERFERONAB UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE INTERFERON_A_B_D UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000006268 RatGTEx
  ENSRNOG00055017348 RatGTEx
  ENSRNOG00060014167 RatGTEx
  ENSRNOG00065019667 RatGTEx
SMART IFabd UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF47266 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A7R8GV74 ENTREZGENE, UniProtKB/TrEMBL
  IFNB_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-03-29 Ifnb1  interferon beta 1  Ifnb1  interferon beta 1, fibroblast  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-30 Ifnb1  interferon beta 1, fibroblast    interferon, beta 1  Name updated 1299863 APPROVED
2002-11-06 Ifnb1  interferon, beta 1    Interferon, beta 1, fibroblast  Name updated 625702 APPROVED
2002-06-10 Ifnb1  Interferon, beta 1, fibroblast      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_homology 86.7 and 67.6% homologous to the mouse and human IFN beta 633076
gene_protein encodes a polypeptide 184 amino acids long 633076