Ifnl1 (interferon, lambda 1) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Behavioral & Substance Use Disorder Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Advanced Search (OLGA)
Gene: Ifnl1 (interferon, lambda 1) Rattus norvegicus
Analyze
Symbol: Ifnl1
Name: interferon, lambda 1
RGD ID: 6493686
Description: Predicted to enable interleukin-28 receptor binding activity. Predicted to be involved in several processes, including negative regulation of immune response; positive regulation of receptor signaling pathway via JAK-STAT; and regulation of macromolecule metabolic process. Predicted to be located in extracellular region. Predicted to be part of interleukin-28 receptor complex. Predicted to be active in extracellular space. Human ortholog(s) of this gene implicated in COVID-19; dengue hemorrhagic fever; hepatitis C; and hepatocellular carcinoma. Orthologous to several human genes including IFNL2 (interferon lambda 2); INTERACTS WITH N,N-diethyl-m-toluamide; permethrin; 2-Hydroxy-6-(8,11,14-pentadecatrienyl)benzoic acid (ortholog).
Type: protein-coding
RefSeq Status: MODEL
Previously known as: If1ia2; interferon 1ia2; interferon lambda-2; interferon lambda-2-like; interleukin-28A-like; LOC100911249
RGD Orthologs
Human
Bonobo
Dog
Pig
Green Monkey
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8192,926,184 - 92,927,830 (-)NCBIGRCr8GRCr8GRCr8
mRatBN7.2183,798,651 - 83,800,297 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl183,798,703 - 83,800,235 (-)EnsemblmRatBN7.2
Rnor_6.0185,252,103 - 85,253,635 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl185,252,103 - 85,253,635 (+)Ensemblrn6Rnor6.0
Rnor_5.0186,468,148 - 86,469,680 (+)NCBIRnor_5.0Rnor_5.0rn5
Cytogenetic Map1q21NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Interferon lambda 1 is associated with dengue severity in Thailand. Arayasongsak U, etal., Int J Infect Dis. 2020 Apr;93:121-125. doi: 10.1016/j.ijid.2020.01.026. Epub 2020 Jan 22.
2. IL28B, IL29 and micro-RNA 548 in subacute sclerosing panencephalitis as a rare disease. Cakmak Genc G, etal., Gene. 2018 Dec 15;678:73-78. doi: 10.1016/j.gene.2018.07.062. Epub 2018 Aug 2.
3. Dendritic cells-derived interferon-λ1 ameliorated inflammatory bone destruction through inhibiting osteoclastogenesis. Chen Y, etal., Cell Death Dis. 2020 Jun 2;11(6):414. doi: 10.1038/s41419-020-2612-z.
4. A mouse-adapted model of SARS-CoV-2 to test COVID-19 countermeasures. Dinnon KH, etal., Nature. 2020 Oct;586(7830):560-566. doi: 10.1038/s41586-020-2708-8. Epub 2020 Aug 27.
5. Type III interferons, IL-28 and IL-29, are increased in chronic HCV infection and induce myeloid dendritic cell-mediated FoxP3+ regulatory T cells. Dolganiuc A, etal., PLoS One. 2012;7(10):e44915. doi: 10.1371/journal.pone.0044915. Epub 2012 Oct 10.
6. Peripheral blood and hepatic Toll-like receptor 7 expression and interferon lambda 1 levels in chronic hepatitis C: Relation to virus replication and liver injury. El Aggan H, etal., Microb Pathog. 2019 Jun;131:65-74. doi: 10.1016/j.micpath.2019.03.032. Epub 2019 Mar 26.
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. IL-28 and IL-29 as protective markers in subject with dengue fever. Hung CH, etal., Med Microbiol Immunol. 2017 Jun;206(3):217-223. doi: 10.1007/s00430-017-0498-x. Epub 2017 Feb 25.
9. Interferon-lambda serum levels in hepatitis C. Langhans B, etal., J Hepatol. 2011 May;54(5):859-65. doi: 10.1016/j.jhep.2010.08.020. Epub 2010 Oct 23.
10. A mechanistic role for type III IFN-λ1 in asthma exacerbations mediated by human rhinoviruses. Miller EK, etal., Am J Respir Crit Care Med. 2012 Mar 1;185(5):508-16. doi: 10.1164/rccm.201108-1462OC. Epub 2011 Dec 1.
11. Interferon Lambda Family along with HTLV-1 Proviral Load, Tax, and HBZ Implicated in the Pathogenesis of Myelopathy/Tropical Spastic Paraparesis. Mozhgani SH, etal., Neurodegener Dis. 2018;18(2-3):150-155. doi: 10.1159/000490058. Epub 2018 Jul 10.
12. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
13. Severity of virus-induced asthma symptoms is inversely related to resolution IFN-λ expression. Schwantes EA, etal., J Allergy Clin Immunol. 2015 Jun;135(6):1656-9. doi: 10.1016/j.jaci.2015.01.038. Epub 2015 Mar 14.
14. Interferon lambda 1-3 expression in infants hospitalized for RSV or HRV associated bronchiolitis. Selvaggi C, etal., J Infect. 2014 May;68(5):467-77. doi: 10.1016/j.jinf.2013.12.010. Epub 2014 Jan 2.
15. Suppression of hepatocellular carcinoma proliferation and hepatitis B surface antigen secretion with interferon-λ1 or PEG-interferon-λ1. Tian S, etal., FASEB J. 2014 Aug;28(8):3528-39. doi: 10.1096/fj.14-250704. Epub 2014 Apr 25.
16. Hepatitis B virus induces a novel inflammation network involving three inflammatory factors, IL-29, IL-8, and cyclooxygenase-2. Yu Y, etal., J Immunol. 2011 Nov 1;187(9):4844-60. doi: 10.4049/jimmunol.1100998. Epub 2011 Sep 28.
17. Genetic polymorphisms of the IFNλ genes are associated with biochemical features in Han Chinese with HCV infection from Yunnan Province, China. Zhang AM, etal., Infect Genet Evol. 2014 Jan;21:161-5. doi: 10.1016/j.meegid.2013.11.013. Epub 2013 Nov 21.
Additional References at PubMed
PMID:12469119   PMID:12483210   PMID:15166220   PMID:15899585   PMID:19346497   PMID:24950142  


Genomics

Comparative Map Data
Ifnl1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8192,926,184 - 92,927,830 (-)NCBIGRCr8GRCr8GRCr8
mRatBN7.2183,798,651 - 83,800,297 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl183,798,703 - 83,800,235 (-)EnsemblmRatBN7.2
Rnor_6.0185,252,103 - 85,253,635 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl185,252,103 - 85,253,635 (+)Ensemblrn6Rnor6.0
Rnor_5.0186,468,148 - 86,469,680 (+)NCBIRnor_5.0Rnor_5.0rn5
Cytogenetic Map1q21NCBI
IFNL1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381939,296,407 - 39,298,673 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1939,296,407 - 39,298,673 (+)Ensemblhg38GRCh38
GRCh371939,787,047 - 39,789,313 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361944,478,805 - 44,481,152 (+)NCBIBuild 36Build 36hg18NCBI36
Build 341944,478,804 - 44,481,152NCBI
Celera1936,588,638 - 36,590,984 (+)NCBICelera
Cytogenetic Map19q13.2NCBI
HuRef1936,233,484 - 36,235,831 (+)NCBIHuRef
CHM1_11939,787,771 - 39,790,118 (+)NCBICHM1_1
T2T-CHM13v2.01942,100,680 - 42,102,942 (+)NCBIT2T-CHM13v2.0
LOC100976419
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22045,591,601 - 45,602,115 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11947,462,219 - 47,472,684 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01936,394,462 - 36,397,363 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11944,942,186 - 44,944,519 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1944,942,186 - 44,944,519 (+)EnsemblpanPan2panpan1.1
IL29L
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12436,440,445 - 36,441,017 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2436,440,445 - 36,441,017 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2435,681,783 - 35,682,355 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02437,144,224 - 37,144,796 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2437,144,224 - 37,144,796 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12436,385,609 - 36,386,181 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02436,518,941 - 36,519,513 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02437,062,250 - 37,062,822 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
IL29
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1751,484,658 - 51,485,233 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11751,484,658 - 51,485,233 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
LOC103234663
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1633,901,382 - 33,904,356 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl633,901,801 - 33,903,894 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366607311,921,937 - 11,924,341 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in Ifnl1
15 total Variants

QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1578649Bmd8Bone mineral density QTL 84.9femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)151940904101229020Rat
1582234Gluco18Glucose level QTL 183.40.0003blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)187889942132889942Rat
1358359Sradr1Stress Responsive Adrenal Weight QTL 14.74adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)139728272132889942Rat
634314Niddm44Non-insulin dependent diabetes mellitus QTL 44blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)151941022208479811Rat
1578654Bss10Bone structure and strength QTL 104femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)151940904168768703Rat
1331800Scl25Serum cholesterol level QTL 253.013blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)187785026142582336Rat
7421628Bp361Blood pressure QTL 3610.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)183019780128019780Rat
631495Bp96Blood pressure QTL 964.52arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)166404680111404680Rat
70225Bp58Blood pressure QTL 583.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)134184556172281316Rat
631512Scl6Serum cholesterol level QTL 69.6blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)18126986099645535Rat
2298545Neuinf8Neuroinflammation QTL 84.6nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)166009857160501508Rat
10059597Bp377Blood pressure QTL 3773.420.025arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)134565911208798288Rat
1302788Scl19Serum cholesterol QTL 194.60.001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)166400974132889942Rat
1549903Bp267Blood pressure QTL 267arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)184107164115183752Rat
2313083Bmd74Bone mineral density QTL 7440.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)191302413136302413Rat
2313402Anxrr24Anxiety related response QTL 24aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)151511344153680016Rat
61342Bp27Blood pressure QTL 273.40.0006arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16540563796805205Rat
1358192Ept13Estrogen-induced pituitary tumorigenesis QTL 133.4pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)186622262131622262Rat
6903308Scl36Serum cholesterol QTL 3620.0125blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)158769992103769992Rat
2300164Bmd44Bone mineral density QTL 445.40.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)166077886111077886Rat
738022Anxrr13Anxiety related response QTL 134.60.00039locomotor behavior trait (VT:0001392)measurement of voluntary locomotion into, out of, or within a discrete space in an open field apparatus (CMO:0001514)192683681137683681Rat
152025249Scl82Serum cholesterol level QTL 824.77blood cholesterol amount (VT:0000180)152891222109116986Rat
10054135Gmadr2Adrenal mass QTL 21.970.0129adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)186993904131993904Rat
7411712Strs4Sensitivity to stroke QTL 48.7cerebrum integrity trait (VT:0010549)percentage of study population developing cerebrovascular lesions during a period of time (CMO:0000932)187558587132558587Rat
1331749Hrtrt11Heart rate QTL 112.973heart pumping trait (VT:2000009)heart rate (CMO:0000002)192683681137683681Rat

Markers in Region
G45272  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2183,798,362 - 83,798,460 (-)MAPPERmRatBN7.2
mRatBN7.2183,798,362 - 83,798,460 (+)MAPPERmRatBN7.2
mRatBN7.2183,816,338 - 83,816,436 (-)MAPPERmRatBN7.2
mRatBN7.2183,816,338 - 83,816,436 (+)MAPPERmRatBN7.2
Rnor_6.0185,235,903 - 85,236,000NCBIRnor6.0
Rnor_6.0185,253,878 - 85,253,975NCBIRnor6.0
Rnor_5.0186,469,923 - 86,470,020UniSTSRnor5.0
Rnor_5.0186,450,491 - 86,450,588UniSTSRnor5.0
RGSC_v3.4183,617,468 - 83,617,565UniSTSRGSC3.4
Celera178,211,121 - 78,211,218UniSTS
Cytogenetic Map1q21UniSTS


Expression

RNA-SEQ Expression

ectoderm
endocrine system
endoderm
mesenchyme
mesoderm
nervous system
reproductive system
respiratory system
sensory system
visual system
13 4 1 2 2 11 6 1 2 2

Sequence


Ensembl Acc Id: ENSRNOT00000080740   ⟹   ENSRNOP00000069941
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl183,798,703 - 83,800,235 (-)Ensembl
Rnor_6.0 Ensembl185,252,103 - 85,253,635 (+)Ensembl
RefSeq Acc Id: XM_008759287   ⟹   XP_008757509
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8192,926,184 - 92,927,830 (-)NCBI
mRatBN7.2183,798,651 - 83,800,297 (-)NCBI
Rnor_6.0185,252,103 - 85,253,635 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_008757509 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein CAB0000200 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000069941
  ENSRNOP00000069941.1
RefSeq Acc Id: XP_008757509   ⟸   XM_008759287
- UniProtKB: A0A0G2JWM7 (UniProtKB/TrEMBL),   F1M3K4 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000069941   ⟸   ENSRNOT00000080740

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A0G2JWM7-F1-model_v2 AlphaFold A0A0G2JWM7 1-192 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:6493686 AgrOrtholog
BioCyc Gene G2FUF-60239 BioCyc
Ensembl Genes ENSRNOG00000056251 Ensembl
  ENSRNOG00000063917 Ensembl
  ENSRNOG00000077856 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000080740 ENTREZGENE
  ENSRNOT00000080740.3 UniProtKB/TrEMBL
Gene3D-CATH 1.20.1250.60 UniProtKB/TrEMBL
InterPro IFN-lambda_sf UniProtKB/TrEMBL
  INF_lambda UniProtKB/TrEMBL
KEGG Report rno:100911249 UniProtKB/TrEMBL
NCBI Gene LOC100911249 ENTREZGENE
PANTHER INTERFERON LAMBDA-2-RELATED UniProtKB/TrEMBL
  PTHR31943 UniProtKB/TrEMBL
Pfam IL28A UniProtKB/TrEMBL
PhenoGen Ifnl1 PhenoGen
RatGTEx ENSRNOG00000056251 RatGTEx
  ENSRNOG00000063917 RatGTEx
  ENSRNOG00000077856 RatGTEx
UniProt A0A0G2JWM7 ENTREZGENE, UniProtKB/TrEMBL
  F1M3K4 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-06-02 Ifnl1  interferon, lambda 1  Ifnl1  interferon, lambda 1  Data merged from RGD:149736503 737654 PROVISIONAL
2021-08-09 Ifnl1  interferon, lambda 1      Symbol and Name status set to provisional 45752 PROVISIONAL
2016-06-15 Ifnl1  interferon, lambda 1  LOC100911249  interleukin-28A-like  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-07-05 LOC100911249  interleukin-28A-like      Symbol and Name status set to provisional 70820 PROVISIONAL