LOC100912356 (interferon alpha-1-like) - Rat Genome Database

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Gene: LOC100912356 (interferon alpha-1-like) Rattus norvegicus
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Symbol: LOC100912356
Name: interferon alpha-1-like
RGD ID: 6487214
Description: Orthologous to human IFNA5 (interferon alpha 5); INTERACTS WITH 8'-apo-beta,psi-caroten-8'-al (ortholog); beta-carotene (ortholog); bisphenol A (ortholog).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: If1ai11; If1ai8; interferon 1ai11; interferon 1ai8
RGD Orthologs
Human
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr85108,343,570 - 108,346,248 (-)NCBIGRCr8
mRatBN7.25103,227,820 - 103,230,500 (-)NCBImRatBN7.2mRatBN7.2
Rnor_6.05107,387,566 - 107,388,182 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5107,387,613 - 107,388,182 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05111,363,475 - 111,364,044 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Cytogenetic Map5q32NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
LOC100912356Ratschizophrenia  ISORGD:13525088554872ClinVar Annotator: match by term: SchizophreniaClinVarPMID:21681106|PMID:30208311
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
LOC100912356Ratmelanoma  ISORGD:135250811554173CTD Direct Evidence: therapeuticCTDPMID:16809738
LOC100912356Ratpancreatic cancer  ISORGD:135250811554173CTD Direct Evidence: therapeuticCTDPMID:15320962


  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
LOC100912356Rat8'-apo-beta,psi-caroten-8'-al increases expressionISORGD:13525086480464apocarotenal results in increased expression of IFNA5 mRNACTDPMID:17034753
LOC100912356Ratbeta-carotene increases expressionISORGD:13525086480464beta Carotene results in increased expression of IFNA5 mRNACTDPMID:17034753
LOC100912356Ratbisphenol A increases methylationISORGD:13525086480464bisphenol A results in increased methylation of IFNA5 geneCTDPMID:31601247
LOC100912356Ratfolic acid decreases expressionISORGD:13525086480464Folic Acid results in decreased expression of IFNA5 mRNACTDPMID:21867686
LOC100912356Ratprotein kinase inhibitor multiple interactionsISORGD:13525086480464Protein Kinase Inhibitors inhibits the reaction [gardiquimod results in increased expression of IFNA5 mRNA]CTDPMID:28003376
LOC100912356RatTheaflavin 3,3'-digallate affects expressionISORGD:13525086480464theaflavin-3,3'-digallate affects the expression of IFNA5 mRNACTDPMID:34925699


#
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. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions


LOC100912356
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr85108,343,570 - 108,346,248 (-)NCBIGRCr8
mRatBN7.25103,227,820 - 103,230,500 (-)NCBImRatBN7.2mRatBN7.2
Rnor_6.05107,387,566 - 107,388,182 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5107,387,613 - 107,388,182 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05111,363,475 - 111,364,044 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Cytogenetic Map5q32NCBI
IFNA5
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38921,304,326 - 21,305,313 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl921,304,326 - 21,305,313 (-)EnsemblGRCh38hg38GRCh38
GRCh37921,304,325 - 21,305,312 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36921,294,686 - 21,295,255 (-)NCBINCBI36Build 36hg18NCBI36
Build 34921,294,685 - 21,295,255NCBI
Celera921,242,926 - 21,243,625 (-)NCBICelera
Cytogenetic Map9p21.3NCBI
HuRef921,268,071 - 21,268,770 (-)NCBIHuRef
CHM1_1921,304,429 - 21,305,128 (-)NCBICHM1_1
T2T-CHM13v2.0921,318,494 - 21,319,481 (-)NCBIT2T-CHM13v2.0

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Variants in LOC100912356
10 total Variants

1 to 10 of 43 rows
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD ID
Symbol
Name
LOD
P Value
Trait
Sub Trait
Chr
Start
Stop
Species
1357396Bw44Body weight QTL 444.19body mass (VT:0001259)body weight (CMO:0000012)568984307104251008Rat
1331796Thshl2Thyroid stimulating hormone level QTL 22.3blood thyroid-stimulating hormone amount (VT:0005119)serum thyroid stimulating hormone level (CMO:0001248)597059760147465714Rat
1549845Scl44Serum cholesterol level QTL 446blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)540128307148607290Rat
61380Edpm5Estrogen-dependent pituitary mass QTL 54.50.92pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)568984307104251008Rat
70212Niddm25Non-insulin dependent diabetes mellitus QTL 253.54blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)51131345958Rat
1298070Scl18Serum cholesterol level QTL 183.7blood LDL cholesterol amount (VT:0000181)calculated plasma low density lipoprotein cholesterol level (CMO:0001245)579584860124584860Rat
634305Mamtr1Mammary tumor resistance QTL 10.0001mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)512789751113558310Rat
61452Ciaa5CIA Autoantibody QTL 53.5blood autoantibody amount (VT:0003725)calculated serum anti-rat type 2 collagen autoantibody titer (CMO:0001281)594858972143070159Rat
1331801Rf33Renal function QTL 334.149kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)543726656129132602Rat
1357402Bw46Body weight QTL 464.47body mass (VT:0001259)body mass index (BMI) (CMO:0000105)568984307104251008Rat

1 to 10 of 43 rows
Ifna1  
Rat AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map5q32UniSTS




alimentary part of gastrointestinal system
ectoderm
endocrine system
endoderm
hemolymphoid system
integumental system
mesenchyme
mesoderm
nervous system
reproductive system
respiratory system
1 4 3 3 1 1 3 2 2 2 3



Ensembl Acc Id: ENSRNOT00000058358   ⟹   ENSRNOP00000055160
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl5107,387,613 - 107,388,182 (-)Ensembl
RefSeq Acc Id: NM_001409402   ⟹   NP_001396331
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr85108,343,570 - 108,346,248 (-)NCBI
mRatBN7.25103,227,820 - 103,230,500 (-)NCBI
Protein RefSeqs NP_001396331 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein CAB0000187 (Get FASTA)   NCBI Sequence Viewer  
  CAB0000192 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000111562
Ensembl Acc Id: ENSRNOP00000055160   ⟸   ENSRNOT00000058358
RefSeq Acc Id: NP_001396331   ⟸   NM_001409402
- Peptide Label: precursor
- UniProtKB: A0A7R8C4Z0 (UniProtKB/TrEMBL)

Name Modeler Protein Id AA Range Protein Structure
AF-F1LU43-F1-model_v2 AlphaFold F1LU43 1-189 view protein structure


eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen



1 to 19 of 19 rows
Database
Acc Id
Source(s)
BioCyc Gene G2FUF-40814 BioCyc
Ensembl Genes ENSRNOG00000059274 Ensembl
  ENSRNOG00000082845 ENTREZGENE
Ensembl Transcript ENSRNOT00000131245 ENTREZGENE
Gene3D-CATH 1.20.1250.10 UniProtKB/TrEMBL
InterPro 4_helix_cytokine-like_core UniProtKB/TrEMBL
  Interferon_alpha/beta/delta UniProtKB/TrEMBL
NCBI Gene LOC100912356 ENTREZGENE
PANTHER INTERFERON ALPHA-5 UniProtKB/TrEMBL
  PTHR11691 UniProtKB/TrEMBL
Pfam Interferon UniProtKB/TrEMBL
PhenoGen LOC100912356 PhenoGen
PRINTS INTERFERONAB UniProtKB/TrEMBL
PROSITE INTERFERON_A_B_D UniProtKB/TrEMBL
RatGTEx ENSRNOG00000059274 RatGTEx
  ENSRNOG00000082845 RatGTEx
SMART IFabd UniProtKB/TrEMBL
Superfamily-SCOP SSF47266 UniProtKB/TrEMBL
UniProt A0A7R8C4Z0 ENTREZGENE, UniProtKB/TrEMBL
1 to 19 of 19 rows


Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-07-05 LOC100912356  interferon alpha-1-like      Symbol and Name status set to provisional 70820 PROVISIONAL