Ifnk (interferon kappa) - Rat Genome Database

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Gene: Ifnk (interferon kappa) Rattus norvegicus
Analyze
Symbol: Ifnk
Name: interferon kappa
RGD ID: 1309045
Description: Predicted to enable cytokine activity and type I interferon receptor binding activity. Predicted to be involved in several processes, including lymphocyte activation involved in immune response; response to exogenous dsRNA; and type I interferon-mediated signaling pathway. Predicted to be located in extracellular region. Predicted to be active in extracellular space. Orthologous to human IFNK (interferon kappa); PARTICIPATES IN cytokine mediated signaling pathway; Jak-Stat signaling pathway; Retinoic acid-inducible gene (RIG) I-like receptor signaling pathway; INTERACTS WITH bisphenol A; cadmium dichloride; trichloroethene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: If1fa; interferon 1fa; interferon, kappa; LOC313152
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8554,528,304 - 54,530,511 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl554,528,304 - 54,530,511 (+)EnsemblGRCr8
mRatBN7.2549,732,073 - 49,734,281 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl549,732,073 - 49,734,281 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx551,925,283 - 51,927,487 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0553,525,545 - 53,527,749 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0553,427,390 - 53,429,596 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0550,631,217 - 50,634,142 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl550,631,217 - 50,634,142 (+)Ensemblrn6Rnor6.0
Rnor_5.0555,196,055 - 55,196,631 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4551,803,329 - 51,803,905 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera548,475,708 - 48,478,169 (+)NCBICelera
RGSC_v3.1551,730,233 - 51,804,083 (+)NCBI
Cytogenetic Map5q21NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
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. 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.
2. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:11514542  


Genomics

Comparative Map Data
Ifnk
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8554,528,304 - 54,530,511 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl554,528,304 - 54,530,511 (+)EnsemblGRCr8
mRatBN7.2549,732,073 - 49,734,281 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl549,732,073 - 49,734,281 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx551,925,283 - 51,927,487 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0553,525,545 - 53,527,749 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0553,427,390 - 53,429,596 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0550,631,217 - 50,634,142 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl550,631,217 - 50,634,142 (+)Ensemblrn6Rnor6.0
Rnor_5.0555,196,055 - 55,196,631 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4551,803,329 - 51,803,905 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera548,475,708 - 48,478,169 (+)NCBICelera
RGSC_v3.1551,730,233 - 51,804,083 (+)NCBI
Cytogenetic Map5q21NCBI
IFNK
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38927,524,290 - 27,526,498 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl927,524,290 - 27,526,498 (+)Ensemblhg38GRCh38
GRCh37927,524,288 - 27,526,496 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36927,514,312 - 27,516,496 (+)NCBIBuild 36Build 36hg18NCBI36
Build 34927,514,311 - 27,516,494NCBI
Celera927,452,433 - 27,454,617 (+)NCBICelera
Cytogenetic Map9p21.2NCBI
HuRef927,477,101 - 27,479,285 (+)NCBIHuRef
CHM1_1927,524,102 - 27,526,286 (+)NCBICHM1_1
T2T-CHM13v2.0927,534,854 - 27,537,062 (+)NCBIT2T-CHM13v2.0
Ifnk
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39435,152,055 - 35,154,019 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl435,152,056 - 35,154,005 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm38435,152,055 - 35,154,019 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl435,152,056 - 35,154,005 (+)Ensemblmm10GRCm38
MGSCv37435,099,304 - 35,101,268 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36435,340,942 - 35,342,906 (+)NCBIMGSCv36mm8
Celera434,868,163 - 34,870,126 (+)NCBICelera
Cytogenetic Map4A5NCBI
cM Map417.08NCBI
Ifnk
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049554727,359,453 - 7,360,055 (-)NCBIChiLan1.0ChiLan1.0
IFNK
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21197,017,807 - 97,020,111 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1997,022,473 - 97,026,049 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0927,371,315 - 27,374,899 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1927,978,446 - 27,979,069 (+)NCBIPanPan1.1PanPan1.1panPan2
IFNK
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11145,641,627 - 45,642,256 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1145,641,627 - 45,642,256 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha1144,318,040 - 44,318,669 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01146,568,952 - 46,589,945 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1146,587,784 - 46,588,413 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11145,243,232 - 45,243,861 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01145,140,168 - 45,140,797 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01145,880,605 - 45,881,234 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Ifnk
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947160,536,991 - 160,537,590 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366112,130,822 - 2,131,547 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049366112,129,751 - 2,131,640 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
IFNK
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1038,444,720 - 38,445,346 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11038,444,720 - 38,445,346 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21043,586,681 - 43,587,307 (-)NCBISscrofa10.2Sscrofa10.2susScr3
IFNK
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1 Ensembl1252,531,758 - 52,532,381 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Ifnk
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11107,663,210 - 107,665,449 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Ifnk
11 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:143
Count of miRNA genes:117
Interacting mature miRNAs:128
Transcripts:ENSRNOT00000034527
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
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
1578776Stresp18Stress response QTL 182.9thymus mass (VT:0004954)thymus wet weight (CMO:0000855)53275164977751649Rat
1298067Scl15Serum cholesterol level QTL 154.80.001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)53801167083011670Rat
1300115Hrtrt7Heart rate QTL 72.76heart pumping trait (VT:2000009)heart rate (CMO:0000002)55266537294894052Rat
6907115Mcs29Mammary carcinoma susceptibility QTL 29mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)53800433183004331Rat
1549845Scl44Serum cholesterol level QTL 446blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)544924861153890773Rat
1358353Srcrtb2Stress Responsive Cort Basal QTL 23.480.003blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)52367149379046465Rat
70212Niddm25Non-insulin dependent diabetes mellitus QTL 253.54blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)538207390136631402Rat
634305Mamtr1Mammary tumor resistance QTL 10.0001mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)51757663362576633Rat
1331801Rf33Renal function QTL 334.149kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)548523123134369373Rat
1578774Tcas8Tongue tumor susceptibility QTL 83.47tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)51570745160707451Rat
1598807Glom12Glomerulus QTL 122.7kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)53801167083011670Rat
1302786Kidm8Kidney mass QTL 828.15kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)53801167083011670Rat
1331782Rf36Renal function QTL 363.296kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)539019942102105896Rat
6903292Stl28Serum triglyceride level QTL 282.60.0073blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)53331167378311673Rat
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)551657967166600247Rat
1578767Stresp17Stress response QTL 174.30.01blood aldosterone amount (VT:0005346)plasma aldosterone level (CMO:0000551)53275164977751649Rat
1641922Alcrsp8Alcohol response QTL 8alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)51748608062486080Rat
1641912Alcrsp18Alcohol response QTL 18response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)53998594884985948Rat
1576314Eutr1Estrogen induced uterine response QTL 1uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)5692228281330203Rat
6903306Scl35Serum cholesterol QTL 352.60.0073blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)53331167378311673Rat
1576317Eutr2Estrogen induced uterine response QTL 20.01uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)53952692484526924Rat
7394712Emca13Estrogen-induced mammary cancer QTL 13mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)51460607859606078Rat
1331773Scl26Serum cholesterol level QTL 263.065blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)54852312391770353Rat
1331771Rf35Renal function QTL 354.36965kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)51001906491770353Rat
8662454Vetf3Vascular elastic tissue fragility QTL 327.4artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)5706553574335773Rat
2290448Scl54Serum cholesterol level QTL 542.93blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)536460764136631402Rat
1641903Alcrsp3Alcohol response QTL 3response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)51748608062486080Rat
1331756Rf34Renal function QTL 344.16275kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)51001906487027358Rat
8552954Pigfal14Plasma insulin-like growth factor 1 level QTL 149blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)52602321171023211Rat
2303577Gluco47Glucose level QTL 473blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)51652001961520019Rat
1600358Mamtr5Mammary tumor resistance QTL 5mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)52367149368671493Rat

Markers in Region
RH137373  
Rat AssemblyChrPosition (strand)SourceJBrowse
RH 3.4 Map5270.3UniSTS
Cytogenetic Map5q22UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
7 9 11 49 33 37 13 32 13 5 111 53 43 30 51 24 2 2

Sequence


Ensembl Acc Id: ENSRNOT00000034527   ⟹   ENSRNOP00000032992
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl554,528,304 - 54,530,511 (+)Ensembl
mRatBN7.2 Ensembl549,732,073 - 49,734,281 (+)Ensembl
Rnor_6.0 Ensembl550,631,217 - 50,634,142 (+)Ensembl
RefSeq Acc Id: NM_001107925   ⟹   NP_001101395
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8554,528,304 - 54,530,511 (+)NCBI
mRatBN7.2549,732,073 - 49,734,281 (+)NCBI
Rnor_6.0550,631,217 - 50,634,142 (+)NCBI
Rnor_5.0555,196,055 - 55,196,631 (+)NCBI
RGSC_v3.4551,803,329 - 51,803,905 (+)RGD
Celera548,475,708 - 48,478,169 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001101395 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein CAB0000196 (Get FASTA)   NCBI Sequence Viewer  
  EDL98613 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000032992
  ENSRNOP00000032992.3
RefSeq Acc Id: NP_001101395   ⟸   NM_001107925
- Peptide Label: precursor
- UniProtKB: D3ZI34 (UniProtKB/TrEMBL),   A6IIP3 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000032992   ⟸   ENSRNOT00000034527

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZI34-F1-model_v2 AlphaFold D3ZI34 1-191 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:1309045 AgrOrtholog
BioCyc Gene G2FUF-41638 BioCyc
Ensembl Genes ENSRNOG00000022990 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000034527 ENTREZGENE
  ENSRNOT00000034527.7 UniProtKB/TrEMBL
Gene3D-CATH 1.20.1250.10 UniProtKB/TrEMBL
InterPro 4_helix_cytokine-like_core UniProtKB/TrEMBL
  Interferon_alpha/beta/delta UniProtKB/TrEMBL
KEGG Report rno:313152 UniProtKB/TrEMBL
NCBI Gene 313152 ENTREZGENE
PANTHER INTERFERON KAPPA UniProtKB/TrEMBL
  Interferon_abd UniProtKB/TrEMBL
Pfam Interferon UniProtKB/TrEMBL
PhenoGen Ifnk PhenoGen
PRINTS INTERFERONAB UniProtKB/TrEMBL
PROSITE INTERFERON_A_B_D UniProtKB/TrEMBL
RatGTEx ENSRNOG00000022990 RatGTEx
SMART IFabd UniProtKB/TrEMBL
Superfamily-SCOP 4_helix_cytokine UniProtKB/TrEMBL
UniProt A6IIP3 ENTREZGENE, UniProtKB/TrEMBL
  D3ZI34 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-06-27     Ifnk  interferon, kappa  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-04 Ifnk  interferon, kappa  Ifnk_predicted  interferon, kappa (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-12 Ifnk_predicted  interferon, kappa (predicted)      Symbol and Name status set to approved 70820 APPROVED