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
Dog
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr85108,343,570 - 108,346,248 (-)NCBIGRCr8GRCr8GRCr8
mRatBN7.25103,227,820 - 103,230,500 (-)NCBImRatBN7.2mRatBN7.2
Rnor_6.05107,387,566 - 107,388,182 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5107,387,613 - 107,388,182 (-)Ensemblrn6Rnor6.0
Rnor_5.05111,363,475 - 111,364,044 (-)NCBIRnor_5.0Rnor_5.0rn5
Cytogenetic Map5q32NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

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

Biological Process

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. 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 (-)NCBIGRCr8GRCr8GRCr8
mRatBN7.25103,227,820 - 103,230,500 (-)NCBImRatBN7.2mRatBN7.2
Rnor_6.05107,387,566 - 107,388,182 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5107,387,613 - 107,388,182 (-)Ensemblrn6Rnor6.0
Rnor_5.05111,363,475 - 111,364,044 (-)NCBIRnor_5.0Rnor_5.0rn5
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 (-)Ensemblhg38GRCh38
GRCh37921,304,325 - 21,305,312 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36921,294,686 - 21,295,255 (-)NCBIBuild 36Build 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 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha1139,392,080 - 39,392,643 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01141,671,573 - 41,672,136 (-)NCBIROS_Cfam_1.0ROS_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_1.0UU_Cfam_GSD_1.0

Variants

.
Variants in LOC100912356
73 total Variants

QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1331796Thshl2Thyroid stimulating hormone level QTL 22.3blood thyroid-stimulating hormone amount (VT:0005119)serum thyroid stimulating hormone level (CMO:0001248)5102105698152749382Rat
1357396Bw44Body weight QTL 444.19body mass (VT:0001259)body weight (CMO:0000012)573779642118779642Rat
2303586Gluco52Glucose level QTL 522blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)5100826632145826632Rat
1549845Scl44Serum cholesterol level QTL 446blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)544924861153890773Rat
70212Niddm25Non-insulin dependent diabetes mellitus QTL 253.54blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)538207390136631402Rat
1298070Scl18Serum cholesterol level QTL 183.7blood LDL cholesterol amount (VT:0000181)calculated plasma low density lipoprotein cholesterol level (CMO:0001245)584630798129630798Rat
61452Ciaa5CIA Autoantibody QTL 53.5blood autoantibody amount (VT:0003725)calculated serum anti-rat type 2 collagen autoantibody titer (CMO:0001281)599905133172190305Rat
1331801Rf33Renal function QTL 334.149kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)548523123134369373Rat
2302381Bw84Body weight QTL 844.47body mass (VT:0001259)body mass index (BMI) (CMO:0000105)573779642118779642Rat
1357402Bw46Body weight QTL 464.47body mass (VT:0001259)body mass index (BMI) (CMO:0000105)573779642118779642Rat
7411582Foco3Food consumption QTL 37.50.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)592583776137583776Rat
61393Bp7Blood pressure QTL 74.50.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)565089051166764498Rat
1598859Cm66Cardiac mass QTL 662heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)584630798129630798Rat
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
1582212Livw2Liver weight QTL 23.50.0004liver mass (VT:0003402)liver weight to body weight ratio (CMO:0000633)5104018576124314782Rat
7411564Bw135Body weight QTL 1350.001body mass (VT:0001259)body weight gain (CMO:0000420)592583776137583776Rat
8657050Bw146Body weight QTL 14619.840.001body mass (VT:0001259)body weight gain (CMO:0000420)598972960143972960Rat
1576312Emca8Estrogen-induced mammary cancer QTL 84.1mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)555124766172190305Rat
7411601Foco12Food consumption QTL 1219.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)592583776137583776Rat
2303618Vencon1Ventilatory control QTL 13.8respiration trait (VT:0001943)oxygen consumption (CMO:0002169)5100826632145826632Rat
7394708Emca11Estrogen-induced mammary cancer QTL 11mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)573176602118176602Rat
1598846Bp293Blood pressure QTL 2933.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)584630798129630798Rat
7394710Emca12Estrogen-induced mammary cancer QTL 12mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)594034903139034903Rat
1578673Bmd13Bone mineral density QTL 134.9femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)569474415114474415Rat
1358909Kidm25Kidney mass QTL 251.87kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)595062526133270832Rat
70189Mcs5Mammary carcinoma susceptibility QTL 510.51mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)560601597137492949Rat
1600362Mcs19Mammary carcinoma susceptibility QTL 192.5mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)582032155127032155Rat
1354598Srn6Serum renin concentration QTL 63.8blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)574335621156302135Rat
2290448Scl54Serum cholesterol level QTL 542.93blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)536460764136631402Rat
61426Scl2Serum cholesterol level QTL 27.30.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)564589016109589016Rat
1298086Bp156Blood pressure QTL 156arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)589369373134369373Rat
2290005Mcs24Mammary carcinoma susceptibility QTL 24mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)569835120114835120Rat
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)570969494136328156Rat
1358895Bp254Blood pressure QTL 2543.60.0003arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)597492524133270832Rat
2312671Scl64Serum cholesterol level QTL 640.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)573779642118779642Rat
1358889Bp261Blood pressure QTL 2612.86arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)595062526133270832Rat
6903316Bw113Body weight QTL 11320.0103body mass (VT:0001259)body weight (CMO:0000012)592881678137881678Rat
1358187Emca1Estrogen-induced mammary cancer QTL 14.4mammary gland integrity trait (VT:0010552)post-insult time to mammary tumor formation (CMO:0000345)5104262817153890625Rat

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
renal system
reproductive system
respiratory system
1 4 3 3 4 1 14 5 5 8 3 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 Protein ENSRNOP00000111562
  ENSRNOP00000111562.1
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
  ENSRNOG00000082845 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000131245 ENTREZGENE
  ENSRNOT00000131245.1 UniProtKB/TrEMBL
Gene3D-CATH 1.20.1250.10 UniProtKB/TrEMBL
InterPro 4_helix_cytokine-like_core UniProtKB/TrEMBL
  Interferon_alpha/beta/delta UniProtKB/TrEMBL
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
  A0ABK0M829_RAT 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