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: 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 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 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
Dog
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 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


Disease Annotations     Click to see Annotation Detail View

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

Genomics

Comparative Map Data
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
IFNA5
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11140,726,568 - 40,727,131 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1140,726,568 - 40,727,131 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1139,392,080 - 39,392,643 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01141,671,573 - 41,672,136 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1141,671,573 - 41,672,136 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11140,363,568 - 40,364,130 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01140,152,526 - 40,153,089 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01140,787,666 - 40,788,229 (-)NCBIUU_Cfam_GSD_1.0

Variants

.
Variants in LOC100912356
10 total Variants

QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
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
2302381Bw84Body weight QTL 844.47body mass (VT:0001259)body mass index (BMI) (CMO:0000105)568984307104251008Rat
7411582Foco3Food consumption QTL 37.50.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)587468046132468046Rat
61393Bp7Blood pressure QTL 74.50.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)560293434161481680Rat
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
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
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
7411564Bw135Body weight QTL 1350.001body mass (VT:0001259)body weight gain (CMO:0000420)587468046132468046Rat
1576312Emca8Estrogen-induced mammary cancer QTL 84.1mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)550328551141643988Rat
7411601Foco12Food consumption QTL 1219.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)587468046132468046Rat
1641912Alcrsp18Alcohol response QTL 18response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)535189153141643988Rat
1576314Eutr1Estrogen induced uterine response QTL 1uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)52138965166875058Rat
7394708Emca11Estrogen-induced mammary cancer QTL 11mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)599753548113061097Rat
1576317Eutr2Estrogen induced uterine response QTL 20.01uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)534730116104251008Rat
1598846Bp293Blood pressure QTL 2933.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)579584860124584860Rat
1358909Kidm25Kidney mass QTL 251.87kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)590067849128034027Rat
70189Mcs5Mammary carcinoma susceptibility QTL 510.51mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)555805606132207589Rat
631527Tls1T-lymphoma susceptibility QTL 100.001thymus integrity trait (VT:0010555)post-insult time to onset of T-cell lymphoma (CMO:0001907)590450144135450144Rat
2290448Scl54Serum cholesterol level QTL 542.93blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)531663789131345958Rat
61426Scl2Serum cholesterol level QTL 27.30.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)559793399143070159Rat
1354598Srn6Serum renin concentration QTL 63.8blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)569540295151018848Rat
1600362Mcs19Mammary carcinoma susceptibility QTL 192.5mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)599485997103690167Rat
1298086Bp156Blood pressure QTL 156arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)584132602129132602Rat
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
1358895Bp254Blood pressure QTL 2543.60.0003arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)558829236128034027Rat
2316959Gluco59Glucose level QTL 594.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)534944474113558310Rat
2312671Scl64Serum cholesterol level QTL 640.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)568984307104251008Rat
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
2316957Pur21Proteinuria QTL 216.2urine protein amount (VT:0005160)urine protein level (CMO:0000591)559793528113558156Rat
1358187Emca1Estrogen-induced mammary cancer QTL 14.4mammary gland integrity trait (VT:0010552)post-insult time to mammary tumor formation (CMO:0000345)599216724148607142Rat

Markers in Region
Ifna1  
Rat AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map5q32UniSTS


Expression

RNA-SEQ Expression

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

Sequence


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 Sequences
Protein RefSeqs NP_001396331 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein CAB0000187 (Get FASTA)   NCBI Sequence Viewer  
  CAB0000192 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Acc Id: ENSRNOP00000055160   ⟸   ENSRNOT00000058358
RefSeq Acc Id: NP_001396331   ⟸   NM_001409402
- Peptide Label: precursor
- UniProtKB: A0A7R8C4Z0 (UniProtKB/TrEMBL)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-F1LU43-F1-model_v2 AlphaFold F1LU43 1-189 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:6487214 AgrOrtholog
BioCyc Gene G2FUF-40814 BioCyc
Ensembl Genes ENSRNOG00000059274 Ensembl
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
SMART IFabd UniProtKB/TrEMBL
Superfamily-SCOP SSF47266 UniProtKB/TrEMBL
UniProt A0A7R8C4Z0 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
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