RGD1560539 (similar to interferon alpha 8/6 precursor; IFNa8/6 (B6)) - Rat Genome Database

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Gene: RGD1560539 (similar to interferon alpha 8/6 precursor; IFNa8/6 (B6)) Rattus norvegicus
Analyze
No known orthologs.
Symbol: RGD1560539 (Ensembl: LOC120103163)
Name: similar to interferon alpha 8/6 precursor; IFNa8/6 (B6) (Ensembl:interferon alpha-12-like)
RGD ID: 1560539
Description: Predicted to enable cytokine activity and type I interferon receptor binding activity. Predicted to be involved in several processes, including B cell activation; lymphocyte activation involved in immune response; and positive regulation of peptidyl-serine phosphorylation of STAT protein. Predicted to be active in extracellular space. Human ortholog(s) of this gene implicated in Crimean-Congo hemorrhagic fever; common cold; hepatitis B; liver disease (multiple); and sarcoidosis. Orthologous to several human genes including IFNA1 (interferon alpha 1); IFNA10 (interferon alpha 10); and IFNA13 (interferon alpha 13); INTERACTS WITH atrazine; azoxystrobin; chlorpyrifos.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: If1ai1; IFNa8/6 (B6); interferon 1ai1; interferon alpha-12-like; LOC502966; similar to interferon alpha 8/6 precursor
RGD Orthologs
Alliance Genes
More Info homologs ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.25103,476,362 - 103,477,427 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5103,494,448 - 103,495,002 (+)EnsemblmRatBN7.2 Ensembl
mRatBN7.2 Ensembl5103,476,657 - 103,477,211 (+)EnsemblmRatBN7.2 Ensembl
mRatBN7.2 Ensembl5103,509,616 - 103,510,170 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx5105,893,396 - 105,894,465 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.05107,622,999 - 107,624,068 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.05107,622,353 - 107,623,414 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0587,353,750 - 87,354,699 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl587,354,042 - 87,354,596 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0591,433,716 - 91,434,389 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45108,312,518 - 108,313,072 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera5102,223,298 - 102,224,144 (+)NCBICelera
Cytogenetic Map5q32NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

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. GOA pipeline RGD automated data pipeline
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Variants

.
Variants in RGD1560539
7 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:7
Count of miRNA genes:7
Interacting mature miRNAs:7
Transcripts:ENSRNOT00000068178
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


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 exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium
Low 5 2 2
Below cutoff 4 12 5 11 5 5 6 6 2 10 6 5

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000099600   ⟹   ENSRNOP00000077573
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl5103,476,657 - 103,477,211 (+)Ensembl
RefSeq Acc Id: NM_001401957   ⟹   NP_001388886
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25103,476,362 - 103,477,427 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001388886 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein CAB0000179 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: ENSRNOP00000077573   ⟸   ENSRNOT00000099600
RefSeq Acc Id: NP_001388886   ⟸   NM_001401957
- Peptide Label: precursor
- UniProtKB: D3Z919 (UniProtKB/TrEMBL)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3Z919-F1-model_v2 AlphaFold D3Z919 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:1560539 AgrOrtholog
BioCyc Gene G2FUF-40800 BioCyc
Ensembl Genes ENSRNOG00000042840 Ensembl
  ENSRNOG00000066857 Ensembl, UniProtKB/TrEMBL
  ENSRNOG00000066962 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOG00000070321 Ensembl, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000077573 ENTREZGENE
  ENSRNOP00000077573.1 UniProtKB/TrEMBL
  ENSRNOP00000085479.1 UniProtKB/TrEMBL
  ENSRNOP00000097297.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000099600 ENTREZGENE
  ENSRNOT00000099600.1 UniProtKB/TrEMBL
  ENSRNOT00000100662.1 UniProtKB/TrEMBL
  ENSRNOT00000101864.1 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:502966 UniProtKB/TrEMBL
NCBI Gene 502966 ENTREZGENE
PANTHER INTERFERON ALPHA-5 UniProtKB/TrEMBL
  PTHR11691 UniProtKB/TrEMBL
Pfam Interferon UniProtKB/TrEMBL
PhenoGen RGD1560539 PhenoGen
PRINTS INTERFERONAB UniProtKB/TrEMBL
PROSITE INTERFERON_A_B_D UniProtKB/TrEMBL
SMART IFabd UniProtKB/TrEMBL
Superfamily-SCOP SSF47266 UniProtKB/TrEMBL
UniProt D3Z919 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-06-02 RGD1560539  similar to interferon alpha 8/6 precursor; IFNa8/6 (B6)  RGD1560539  similar to interferon alpha 8/6 precursor; IFNa8/6 (B6)  Data Merged 737654 PROVISIONAL
2021-08-09 RGD1560539  similar to interferon alpha 8/6 precursor; IFNa8/6 (B6)      Symbol and Name status set to provisional 45752 PROVISIONAL
2008-04-30 RGD1560539  similar to interferon alpha 8/6 precursor; IFNa8/6 (B6)   RGD1560539_predicted  similar to interferon alpha 8/6 precursor; IFNa8/6 (B6) (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-07 RGD1560539_predicted  similar to interferon alpha 8/6 precursor; IFNa8/6 (B6) (predicted)  LOC502966  similar to interferon alpha 8/6 precursor; IFNa8/6 (B6)  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC502966  similar to interferon alpha 8/6 precursor; IFNa8/6 (B6)      Symbol and Name status set to provisional 70820 PROVISIONAL