IFNL1 (interferon lambda 1) - Rat Genome Database

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Gene: IFNL1 (interferon lambda 1) Homo sapiens
Analyze
Symbol: IFNL1
Name: interferon lambda 1
RGD ID: 1347142
HGNC Page HGNC
Description: Enables interleukin-28 receptor binding activity. Involved in several processes, including negative regulation of immune response; positive regulation of macromolecule metabolic process; and regulation of gene expression. Located in extracellular region. Part of interleukin-28 receptor complex. Implicated in COVID-19; dengue hemorrhagic fever; hepatitis C; and hepatocellular carcinoma. Biomarker of asthma; dengue disease; subacute sclerosing panencephalitis; and tropical spastic paraparesis.
Type: protein-coding
RefSeq Status: REVIEWED
Also known as: cytokine Zcyto21; IFN-lambda-1; IL-29; IL29; interferon lambda-1; interferon, lambda 1; interferon-lambda-1; interleukin 29 (interferon, lambda 1); interleukin-29
RGD Orthologs
Rat
Bonobo
Dog
Pig
Green Monkey
Alliance Genes
More Info more info ...
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1939,296,407 - 39,298,673 (+)EnsemblGRCh38hg38GRCh38
GRCh381939,296,407 - 39,298,673 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371939,787,047 - 39,789,313 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361944,478,805 - 44,481,152 (+)NCBINCBI36hg18NCBI36
Build 341944,478,804 - 44,481,152NCBI
Celera1936,588,638 - 36,590,984 (+)NCBI
Cytogenetic Map19q13.2NCBI
HuRef1936,233,484 - 36,235,831 (+)NCBIHuRef
CHM1_11939,787,771 - 39,790,118 (+)NCBICHM1_1
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
1. 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. Cakmak Genc G, etal., Gene. 2018 Dec 15;678:73-78. doi: 10.1016/j.gene.2018.07.062. Epub 2018 Aug 2.
3. Chen Y, etal., Cell Death Dis. 2020 Jun 2;11(6):414. doi: 10.1038/s41419-020-2612-z.
4. Dinnon KH, etal., Nature. 2020 Oct;586(7830):560-566. doi: 10.1038/s41586-020-2708-8. Epub 2020 Aug 27.
5. Dolganiuc A, etal., PLoS One. 2012;7(10):e44915. doi: 10.1371/journal.pone.0044915. Epub 2012 Oct 10.
6. El Aggan H, etal., Microb Pathog. 2019 Jun;131:65-74. doi: 10.1016/j.micpath.2019.03.032. Epub 2019 Mar 26.
7. GOA_HUMAN data from the GO Consortium
8. Hung CH, etal., Med Microbiol Immunol. 2017 Jun;206(3):217-223. doi: 10.1007/s00430-017-0498-x. Epub 2017 Feb 25.
9. Langhans B, etal., J Hepatol. 2011 May;54(5):859-65. doi: 10.1016/j.jhep.2010.08.020. Epub 2010 Oct 23.
10. 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. Mozhgani SH, etal., Neurodegener Dis. 2018;18(2-3):150-155. doi: 10.1159/000490058. Epub 2018 Jul 10.
12. Pipeline to import KEGG annotations from KEGG into RGD
13. RGD automated import pipeline for gene-chemical interactions
14. 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.
15. Selvaggi C, etal., J Infect. 2014 May;68(5):467-77. doi: 10.1016/j.jinf.2013.12.010. Epub 2014 Jan 2.
16. Tian S, etal., FASEB J. 2014 Aug;28(8):3528-39. doi: 10.1096/fj.14-250704. Epub 2014 Apr 25.
17. Yu Y, etal., J Immunol. 2011 Nov 1;187(9):4844-60. doi: 10.4049/jimmunol.1100998. Epub 2011 Sep 28.
18. 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:12477932   PMID:12483210   PMID:15166220   PMID:15489334   PMID:15850793   PMID:15899585   PMID:16014923   PMID:16051921   PMID:16478884   PMID:16539846   PMID:16618774  
PMID:17082759   PMID:17252004   PMID:17367910   PMID:18281438   PMID:18698163   PMID:18757365   PMID:18830264   PMID:19155475   PMID:19193806   PMID:19304895   PMID:19346497   PMID:19759281  
PMID:19798076   PMID:20057073   PMID:20060832   PMID:20103601   PMID:20309637   PMID:20337614   PMID:20592090   PMID:20726961   PMID:20934432   PMID:21040977   PMID:21075852   PMID:21170333  
PMID:21190998   PMID:21398614   PMID:21499846   PMID:21679442   PMID:21800339   PMID:21816185   PMID:21847628   PMID:21873635   PMID:22058416   PMID:22072783   PMID:22249201   PMID:22701693  
PMID:22891284   PMID:23039206   PMID:23078630   PMID:23150165   PMID:23151616   PMID:23207147   PMID:23218741   PMID:23258595   PMID:23529855   PMID:23729669   PMID:24068736   PMID:24140069  
PMID:24337382   PMID:24385435   PMID:24498220   PMID:24510368   PMID:24819718   PMID:25255471   PMID:25316442   PMID:25355870   PMID:25473098   PMID:25518713   PMID:25592858   PMID:25756191  
PMID:25936570   PMID:26057401   PMID:26194286   PMID:26219901   PMID:26278073   PMID:26336095   PMID:26342113   PMID:26353965   PMID:26420479   PMID:26612594   PMID:26718740   PMID:26896692  
PMID:27433031   PMID:27445435   PMID:27544015   PMID:27617784   PMID:28154345   PMID:28165510   PMID:28496097   PMID:28514442   PMID:28595092   PMID:28606236   PMID:28678391   PMID:28720717  
PMID:28753407   PMID:29446489   PMID:29938771   PMID:30001863   PMID:30224514   PMID:30460894   PMID:30508540   PMID:30762338   PMID:30914508   PMID:31120365   PMID:31211458   PMID:31363171  
PMID:31455413   PMID:31586073   PMID:31639447   PMID:31690057   PMID:32245297   PMID:32295609   PMID:32468318   PMID:32527925   PMID:32557259   PMID:32796076   PMID:33116245   PMID:33449383  
PMID:33885337   PMID:34030913  


Genomics

Comparative Map Data
IFNL1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1939,296,407 - 39,298,673 (+)EnsemblGRCh38hg38GRCh38
GRCh381939,296,407 - 39,298,673 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371939,787,047 - 39,789,313 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361944,478,805 - 44,481,152 (+)NCBINCBI36hg18NCBI36
Build 341944,478,804 - 44,481,152NCBI
Celera1936,588,638 - 36,590,984 (+)NCBI
Cytogenetic Map19q13.2NCBI
HuRef1936,233,484 - 36,235,831 (+)NCBIHuRef
CHM1_11939,787,771 - 39,790,118 (+)NCBICHM1_1
Ifnl1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2183,798,651 - 83,800,297 (-)NCBImRatBN7.2
Rnor_6.0185,252,103 - 85,253,635 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl185,252,103 - 85,253,635 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0186,468,148 - 86,469,680 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Cytogenetic Map1q21NCBI
LOC100976419
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11944,942,186 - 44,944,519 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1944,942,186 - 44,944,519 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01936,394,462 - 36,397,363 (+)NCBIMhudiblu_PPA_v0panPan3
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 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2435,681,783 - 35,682,355 (+)NCBI
ROS_Cfam_1.02437,144,224 - 37,144,796 (+)NCBI
UMICH_Zoey_3.12436,385,609 - 36,386,181 (+)NCBI
UNSW_CanFamBas_1.02436,518,941 - 36,519,513 (+)NCBI
UU_Cfam_GSD_1.02437,062,250 - 37,062,822 (+)NCBI
IL29
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1751,484,658 - 51,485,233 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
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 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl633,901,801 - 33,903,894 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366607311,921,937 - 11,924,341 (+)NCBIVero_WHO_p1.0

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:172
Count of miRNA genes:167
Interacting mature miRNAs:171
Transcripts:ENST00000333625
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.


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 sensory system adipose tissue appendage entire extraembryonic component
High
Medium 1 9 1
Low 33 60 11 5 156 6 6 13 6 114 42 4
Below cutoff 629 865 461 200 920 150 1061 381 1006 139 599 599 52 306 641 2

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_172140 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC011445 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY129150 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY184372 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY336716 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC074985 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC117482 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC126183 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH471126 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CS055923 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CS183955 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CS364716 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CS443042 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CS443044 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FB742070 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  GM040594 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  GM615402 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  GM615404 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  HC206738 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  HC206740 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  HI658880 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  HI659151 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  HQ214053 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JB971263 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JF268782 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENST00000333625   ⟹   ENSP00000329991
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl1939,296,407 - 39,298,673 (+)Ensembl
RefSeq Acc Id: NM_172140   ⟹   NP_742152
RefSeq Status: REVIEWED
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381939,296,407 - 39,298,673 (+)NCBI
GRCh371939,786,965 - 39,789,312 (+)ENTREZGENE
Build 361944,478,805 - 44,481,152 (+)NCBI Archive
HuRef1936,233,484 - 36,235,831 (+)ENTREZGENE
CHM1_11939,787,771 - 39,790,118 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_742152   ⟸   NM_172140
- Peptide Label: precursor
- UniProtKB: Q8IU54 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSP00000329991   ⟸   ENST00000333625

Promoters
RGD ID:7239885
Promoter ID:EPDNEW_H25689
Type:single initiation site
Name:IFNL1_1
Description:interferon lambda 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Human AssemblyChrPosition (strand)Source
GRCh381939,296,407 - 39,296,467EPDNEW

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 19q13.12-13.2(chr19:37319377-42738688)x3 copy number gain See cases [RCV000050636] Chr19:37319377..42738688 [GRCh38]
Chr19:37810279..43242840 [GRCh37]
Chr19:42502119..47934680 [NCBI36]
Chr19:19q13.12-13.2
pathogenic
GRCh38/hg38 19p13.2-q13.31(chr19:11227942-44626354)x3 copy number gain See cases [RCV000133888] Chr19:11227942..44626354 [GRCh38]
Chr19:11338618..45129651 [GRCh37]
Chr19:11199618..49821491 [NCBI36]
Chr19:19p13.2-q13.31
pathogenic
GRCh37/hg19 19q13.12-13.2(chr19:37582250-41630908)x3 copy number gain See cases [RCV000239839] Chr19:37582250..41630908 [GRCh37]
Chr19:19q13.12-13.2
pathogenic
GRCh37/hg19 19p13.3-q13.43(chr19:260912-58956888)x3 copy number gain See cases [RCV000511289] Chr19:260912..58956888 [GRCh37]
Chr19:19p13.3-q13.43
pathogenic|uncertain significance
GRCh37/hg19 19p13.3-q13.43(chr19:260912-58956888) copy number gain See cases [RCV000512296] Chr19:260912..58956888 [GRCh37]
Chr19:19p13.3-q13.43
pathogenic
GRCh37/hg19 19p13.3-q13.43(chr19:260912-59097160)x3 copy number gain not provided [RCV000752444] Chr19:260912..59097160 [GRCh37]
Chr19:19p13.3-q13.43
pathogenic
GRCh37/hg19 19p13.3-q13.43(chr19:68029-59110290)x3 copy number gain not provided [RCV000752439] Chr19:68029..59110290 [GRCh37]
Chr19:19p13.3-q13.43
pathogenic
NM_172140.2(IFNL1):c.261C>T (p.Arg87=) single nucleotide variant not provided [RCV000901589] Chr19:39297975 [GRCh38]
Chr19:39788615 [GRCh37]
Chr19:19q13.2
benign
NM_172140.2(IFNL1):c.294G>A (p.Thr98=) single nucleotide variant not provided [RCV000878993] Chr19:39298008 [GRCh38]
Chr19:39788648 [GRCh37]
Chr19:19q13.2
benign
GRCh37/hg19 19q11-13.33(chr19:28271106-49213832)x3 copy number gain not provided [RCV000845733] Chr19:28271106..49213832 [GRCh37]
Chr19:19q11-13.33
pathogenic
NM_172140.2(IFNL1):c.82A>G (p.Thr28Ala) single nucleotide variant not provided [RCV000889165] Chr19:39296503 [GRCh38]
Chr19:39787143 [GRCh37]
Chr19:19q13.2
benign

Additional Information

Database Acc Id Source(s)
AGR Gene HGNC:18363 AgrOrtholog
COSMIC IFNL1 COSMIC
Ensembl Genes ENSG00000182393 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSP00000329991 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENST00000333625 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 1.20.1250.60 UniProtKB/Swiss-Prot
GTEx ENSG00000182393 GTEx
HGNC ID HGNC:18363 ENTREZGENE
Human Proteome Map IFNL1 Human Proteome Map
InterPro IFN-lambda_sf UniProtKB/Swiss-Prot
  INF_lambda UniProtKB/Swiss-Prot
KEGG Report hsa:282618 UniProtKB/Swiss-Prot
NCBI Gene 282618 ENTREZGENE
OMIM 607403 OMIM
PANTHER PTHR31943 UniProtKB/Swiss-Prot
Pfam IL28A UniProtKB/Swiss-Prot
PharmGKB PA134899000 PharmGKB
UniProt IFNL1_HUMAN UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary A0AV25 UniProtKB/Swiss-Prot
  Q17R34 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-06-21 IFNL1  interferon lambda 1    interferon, lambda 1  Symbol and/or name change 5135510 APPROVED
2012-11-28 IFNL1  interferon, lambda 1  IL29  interleukin 29 (interferon, lambda 1)  Symbol and/or name change 5135510 APPROVED
2011-08-16 IL29  interleukin 29 (interferon, lambda 1)  IL29  interleukin 29 (interferon, lambda 1)  Symbol and/or name change 5135510 APPROVED