Ifnl3 (interferon, lambda 3) - Rat Genome Database

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Gene: Ifnl3 (interferon, lambda 3) Rattus norvegicus
Analyze
Symbol: Ifnl3
Name: interferon, lambda 3
RGD ID: 1589046
Description: Predicted to enable signaling receptor binding activity. Predicted to be involved in defense response to virus and innate immune response. Predicted to be active in extracellular space. Human ortholog(s) of this gene implicated in cryoglobulinemia; hepatitis C; liver cirrhosis; and thrombocytopenia. Orthologous to human IFNL2 (interferon lambda 2) and IFNL3 (interferon lambda 3); PARTICIPATES IN Jak-Stat signaling pathway; INTERACTS WITH benzo[a]pyrene; bisphenol A; (-)-alpha-phellandrene (ortholog).
Type: protein-coding
RefSeq Status: MODEL
Previously known as: If1ia1; Il28b; interferon 1ia1; interferon lambda-2; interferon lambda-2-like; interleukin 28B; LOC685840; LOC685861; similar to interferon-lambda2
RGD Orthologs
Human
Mouse
Bonobo
Dog
Pig
Green Monkey
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8192,941,988 - 92,943,628 (+)NCBIGRCr8GRCr8GRCr8
mRatBN7.2183,814,456 - 83,816,096 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl183,814,564 - 83,816,096 (+)EnsemblmRatBN7.2
Rnor_6.0185,236,243 - 85,237,775 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl185,236,243 - 85,237,775 (-)Ensemblrn6Rnor6.0
Rnor_5.0186,450,831 - 86,452,363 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4183,617,808 - 83,619,340 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera178,209,346 - 78,210,878 (+)NCBICelera
Cytogenetic Map1q21NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Interferon-λ4 (IFNL4) transcript expression in human liver tissue samples. Amanzada A, etal., PLoS One. 2013 Dec 20;8(12):e84026. doi: 10.1371/journal.pone.0084026. eCollection 2013.
2. Interleukin-1 receptor antagonist gene polymorphism and mortality in patients with severe sepsis. Arnalich F, etal., Clin Exp Immunol. 2002 Feb;127(2):331-6.
3. IFNL4 polymorphism predicts response to hepatitis C treatment after liver transplantation. Fernández-Carrillo C, etal., J Clin Virol. 2014 Oct;61(2):282-5. doi: 10.1016/j.jcv.2014.07.015. Epub 2014 Jul 30.
4. 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.
5. Association with Spontaneous Hepatitis C Viral Clearance and Genetic Differentiation of IL28B/IFNL4 Haplotypes in Populations from Mexico. Gonzalez-Aldaco K, etal., PLoS One. 2016 Jan 7;11(1):e0146258. doi: 10.1371/journal.pone.0146258. eCollection 2016.
6. Genetic variants in interferon-λ 4 influences HCV clearance in Chinese Han population. Huang P, etal., Sci Rep. 2017 Feb 10;7:42408. doi: 10.1038/srep42408.
7. Influence of IFNL3.rs12979860 and IFNL4.ss469415590 polymorphism on clearance of hepatitis C virus infection among Egyptians. Knapp S, etal., Hepatol Int. 2015 Apr;9(2):251-7. doi: 10.1007/s12072-015-9619-z. Epub 2015 Mar 12.
8. Interferon lambda 3 rs12979860 polymorphism in patients with haemophilia and HCV infection: a predictor of spontaneous viral clearance and sustained virological response. Mancuso ME, etal., Thromb Haemost. 2014 Jun;111(6):1067-76. doi: 10.1160/TH13-11-897. Epub 2014 Feb 13.
9. IFNL4 polymorphism effects on outcome of simeprevir, peginterferon, and ribavirin therapy for older patients with genotype 1 chronic hepatitis C. Mori N, etal., Hepatol Res. 2017 Mar;47(3):E5-E13. doi: 10.1111/hepr.12715. Epub 2016 Apr 21.
10. Effect of laparoscopic splenectomy in patients with Hepatitis C and cirrhosis carrying IL28B minor genotype. Motomura T, etal., BMC Gastroenterol. 2012 Nov 12;12:158. doi: 10.1186/1471-230X-12-158.
11. Genetic polymorphism in IFNL4 and response to pegylated interferon-alpha and ribavirin in Japanese chronic hepatitis C patients. Nozawa Y, etal., Tissue Antigens. 2014 Jan;83(1):45-8. doi: 10.1111/tan.12264.
12. IFNL4/IL-28B haplotype structure and its impact on susceptibility to hepatitis C virus and treatment response in the Japanese population. Ochi H, etal., J Gen Virol. 2014 Jun;95(Pt 6):1297-1306. doi: 10.1099/vir.0.060103-0. Epub 2014 Mar 19.
13. Valuable antiviral therapeutic options for the treatment of chronic hepatitis C patients with thrombocytopenia. Ogawa E, etal., J Viral Hepat. 2013 Dec;20(12):838-46. doi: 10.1111/jvh.12109. Epub 2013 May 26.
14. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
15. IFNL3 polymorphisms and HCV infection in patients with beta thalassemia. Origa R, etal., Ann Hepatol. 2015 May-Jun;14(3):389-95.
16. Variation in genes encoding for interferon λ-3 and λ-4 in the prediction of HCV-1 treatment-induced viral clearance. Palmieri O, etal., Liver Int. 2014 Oct;34(9):1369-77. doi: 10.1111/liv.12411. Epub 2013 Dec 23.
17. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
18. Marked impact of IL28B genotype in the natural clearance of hepatitis C virus in patients with haemoglobinopathies. Renda MC, etal., Br J Haematol. 2011 Sep;154(5):659-61. doi: 10.1111/j.1365-2141.2011.08637.x. Epub 2011 May 25.
19. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
20. Comprehensive gene review and curation RGD comprehensive gene curation
21. The impact of genetic variation in IL28B, IFNL4 and HLA genes on treatment responses against chronic hepatitis C virus infection. Sakhaee F, etal., Infect Genet Evol. 2017 Oct;54:330-337. doi: 10.1016/j.meegid.2017.07.023. Epub 2017 Jul 21.
22. Interleukin 28B gene polymorphisms in hepatitis C virus-related cryoglobulinemic vasculitis. Sansonno D, etal., J Rheumatol. 2014 Jan;41(1):91-8. doi: 10.3899/jrheum.130527. Epub 2013 Dec 1.
23. Role of IL28B and inosine triphosphatase polymorphisms in the treatment of chronic hepatitis C virus genotype 6 infection. Seto WK, etal., J Viral Hepat. 2013 Jul;20(7):470-7. doi: 10.1111/jvh.12047. Epub 2013 Apr 12.
24. Modeling Ribavirin-Induced Anemia in Patients with Chronic Hepatitis C Virus. Wu LS, etal., CPT Pharmacometrics Syst Pharmacol. 2016 Feb;5(2):65-73. doi: 10.1002/psp4.12058. Epub 2016 Feb 2.
25. Prevalence of IFNL3 rs4803217 single nucleotide polymorphism and clinical course of chronic hepatitis C. Świątek-Kościelna B, etal., World J Gastroenterol. 2017 Jun 7;23(21):3815-3824. doi: 10.3748/wjg.v23.i21.3815.
Additional References at PubMed
PMID:21518880   PMID:24270810  


Genomics

Comparative Map Data
Ifnl3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8192,941,988 - 92,943,628 (+)NCBIGRCr8GRCr8GRCr8
mRatBN7.2183,814,456 - 83,816,096 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl183,814,564 - 83,816,096 (+)EnsemblmRatBN7.2
Rnor_6.0185,236,243 - 85,237,775 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl185,236,243 - 85,237,775 (-)Ensemblrn6Rnor6.0
Rnor_5.0186,450,831 - 86,452,363 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4183,617,808 - 83,619,340 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera178,209,346 - 78,210,878 (+)NCBICelera
Cytogenetic Map1q21NCBI
IFNL3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381939,243,455 - 39,245,250 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1939,243,455 - 39,245,250 (-)Ensemblhg38GRCh38
GRCh371939,734,095 - 39,735,890 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361944,426,112 - 44,427,451 (-)NCBIBuild 36Build 36hg18NCBI36
Build 341944,426,111 - 44,427,451NCBI
Celera1936,537,863 - 36,539,202 (-)NCBICelera
Cytogenetic Map19q13.2NCBI
HuRef1936,181,319 - 36,182,658 (-)NCBIHuRef
CHM1_11939,735,081 - 39,736,420 (-)NCBICHM1_1
T2T-CHM13v2.01942,047,720 - 42,049,515 (-)NCBIT2T-CHM13v2.0
Ifnl2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39728,208,209 - 28,209,957 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl728,208,261 - 28,209,880 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm38728,508,784 - 28,510,532 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl728,508,836 - 28,510,455 (-)Ensemblmm10GRCm38
MGSCv37729,293,880 - 29,295,379 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36728,217,621 - 28,219,120 (-)NCBIMGSCv36mm8
Celera723,071,574 - 23,073,073 (-)NCBICelera
Cytogenetic Map7A3NCBI
cM Map716.8NCBI
IFNL3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22045,538,198 - 45,540,682 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11947,409,029 - 47,411,299 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01936,341,396 - 36,343,261 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
IFNL3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Dog10K_Boxer_Tasha1113,356,570 - 113,358,011 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01114,553,957 - 114,555,398 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1114,553,847 - 114,555,398 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11114,112,719 - 114,114,160 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01113,745,246 - 113,746,687 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01114,740,713 - 114,742,154 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
IL28B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl647,951,595 - 47,953,467 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1647,951,925 - 47,953,282 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.214143,794,666 - 143,797,159 (-)NCBISscrofa10.2Sscrofa10.2susScr3
LOC103234659
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1633,843,140 - 33,845,444 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366607311,865,640 - 11,867,069 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in Ifnl3
10 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:35
Count of miRNA genes:34
Interacting mature miRNAs:35
Transcripts:ENSRNOT00000035328
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 (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

alimentary part of gastrointestinal system
circulatory system
ectoderm
endocrine system
endoderm
mesenchyme
mesoderm
nervous system
reproductive system
respiratory system
sensory system
visual system
1 1 17 4 1 4 3 15 6 1 5 5

Sequence


Ensembl Acc Id: ENSRNOT00000035328   ⟹   ENSRNOP00000033808
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl183,814,564 - 83,816,096 (+)Ensembl
Rnor_6.0 Ensembl185,236,243 - 85,237,775 (-)Ensembl
RefSeq Acc Id: XM_006228638   ⟹   XP_006228700
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8192,941,988 - 92,943,628 (+)NCBI
mRatBN7.2183,814,456 - 83,816,096 (+)NCBI
Rnor_6.0185,236,243 - 85,237,775 (-)NCBI
Rnor_5.0186,450,831 - 86,452,363 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_006228700 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein CAB0000198 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000033808
  ENSRNOP00000033808.5
RefSeq Acc Id: XP_006228700   ⟸   XM_006228638
- UniProtKB: F1M3K4 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000033808   ⟸   ENSRNOT00000035328

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-F1M3K4-F1-model_v2 AlphaFold F1M3K4 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:1589046 AgrOrtholog
BioCyc Gene G2FUF-60238 BioCyc
Ensembl Genes ENSRNOG00000026584 Ensembl
  ENSRNOG00000071068 Ensembl
  ENSRNOG00000082401 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000035328 ENTREZGENE
  ENSRNOT00000035328.7 UniProtKB/TrEMBL
Gene3D-CATH 1.20.1250.60 UniProtKB/TrEMBL
InterPro IFN-lambda_sf UniProtKB/TrEMBL
  INF_lambda UniProtKB/TrEMBL
KEGG Report rno:685840 UniProtKB/TrEMBL
NCBI Gene 685840 ENTREZGENE
PANTHER INTERFERON LAMBDA-2-RELATED UniProtKB/TrEMBL
  PTHR31943 UniProtKB/TrEMBL
Pfam IL28A UniProtKB/TrEMBL
PhenoGen Ifnl3 PhenoGen
RatGTEx ENSRNOG00000026584 RatGTEx
  ENSRNOG00000071068 RatGTEx
  ENSRNOG00000082401 RatGTEx
UniProt F1M3K4 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-06-02 Ifnl3  interferon, lambda 3  Ifnl3  interferon, lambda 3  Data merged from RGD:149736509 737654 PROVISIONAL
2021-08-09 Ifnl3  interferon, lambda 3      Symbol and Name status set to provisional 45752 PROVISIONAL
2015-07-29 Ifnl3  interferon, lambda 3  LOC685861  similar to interferon-lambda2  Data merged from RGD:1589025 737654 PROVISIONAL
2013-02-22 Ifnl3  interferon, lambda 3  Il28b  interleukin 28B  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2011-02-18 Il28b  interleukin 28B  LOC685840  similar to interferon-lambda2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-19 LOC685840  similar to interferon-lambda2      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-19 LOC685861  similar to interferon-lambda2      Symbol and Name status set to provisional 70820 PROVISIONAL