H-InvDB x AHG DB
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H-InvDB_8.3 released on March 26, 2013.
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H-Invitational ID: HIT000329559 Accession number: AB209624 Created date: 26-Mar-2013 Last modified: 26-Mar-2013
Definition: Similar to Interferon regulatory factor 1; IRF-1;
 
 

Transcript original information
Accession number AB209624.1
CAGE tag ID NA
EST ID NA
Clone Number sh02382
Experimental resources NBRC: NITE Biological Resource Center  NBRC ; HGPD: Human Gene and Protein Database HGPD ; Antibody: searching human antibodies at "BIO-kaimono.com" Antibody (IRF1) ; Catalog: searching experimental product catalogs at "BIO-kaimono.com" Catalog (IRF1);
Sequence data provider NA
Annotation project NA
Length of cDNA 4748[bp] (No. of exon:5)[A:1147 T:1132 G:1330 C:1139]
Devision HUM
Molecular type mRNA
Library origin Cell type NA
Tissue type spleen
Develpmental stage NA
Mini-G
Sequence quality information
CDS feature N-truncated
Kozak sequence NA
PolyA NA
Vector/adapter sequence NA
Frame shift NA
Remaining intron 1285-1397[bp]; 1444-1551[bp]; 1682-1864[bp];
Splice site acceptor (NAGNAG) NA
Transcript quality feature NA
Notes NA

Gene structure information  G-integra H-DBAS cDNA-genome alignment
H-Inv cluster ID HIX0005159
Genomic location  G-integra Help Chromosome 5
Location 5q31.1
Position 131818777- 131824724
Strand -
Possible duplicated location(s) NA
Gene structure 5 exon(s)
Database links RefSeq NM_002198
Ensembl ENST00000245414ENST00000405885ENST00000437654ENST00000439555ENST00000458069ENST00000459982ENST00000463784ENST00000472045ENST00000476613ENST00000493208
Entrez Gene Entrez Gene ID:3659
KEGG GENES KEGG GENES(3659)
GeneCard GeneCardIRF1*GeneCards is provided free to academic non-profit institutions.
Related H-InvDB links H-DBASH-DBAS G-integraG-integra cDNA-genome alignmentcDNA-genome alignment

Predicted CDS information
HIP ID HIP000172260
Predicted CDS 971..1660;  229[aa];  Orientation:+2; 
Codon Adaptation Index (CAI). 0.823

Gene function information  Gene family PPI viewer Similarity Search Tool TACT
H-Inv ID HIT000329559
H-Inv cluster ID Locus viewHIX0005159
Accession number AB209624.1
CAGE tag ID NA
EST ID NA
Transcript feature  Help NO;  Splicing isoformSplicing isoform
Coding potential  Help Protein coding; 
Definition Similar to Interferon regulatory factor 1; IRF-1;
Similarity category  Help Category: Similar to known protein(Category II).
Similar to known protein (P10914)  [Identity/coverage = 98.98%/60.31%] to Homo sapiens (Human). protein.
Experimental evidence Protein evidence
PubMed ID 1382447272646134093218438156967975210395927154893341794270518497060ALL
Gene family/group Gene family H-Inv gene family/group ID NA
Gene family/group name NA
Evidence motif (InterPro) ID NA
Gene symbol/name HGNC symbol IRF1
HGNC aliases NA
HGNC name interferon regulatory factor 1
DDBJ NA
UniProt IRF1
EC number NA
GGDB
(GlycoGene Database)
Gene symbol NA
Familly NA
Designation NA
Expression NA
KEGG metabolic pathway NA
Protein-protein interaction (PPI) PPI viewer H-Inv protein ID HIP000172260
No. of interaction NA
Interaction partner(s) NA
BIND NA
DIP NA
MINT NA
HPRD NA
IntAct NA
Database links RefSeq NM_002198
Ensembl ENST00000245414ENST00000405885ENST00000437654ENST00000439555ENST00000458069ENST00000459982ENST00000463784ENST00000472045ENST00000476613ENST00000493208
Entrez Gene Entrez Gene ID:3659
KEGG GENES KEGG GENES(3659)
GeneCard GeneCardIRF1*GeneCards is provided free to academic non-profit institutions.
etc H-GOLDHuman-Gene diversity Of Life-style related Diseases
Curation status Auto-annotated
Notes NA
Related H-InvDB links Gene familyGene family;  Similarity Search ToolSimilarity Search Tool;  TACTTACT
fRNAdb (The functional RNA database) : overlapping fRNAdb entries with H-InvDB transcripts based on the location of the genome. 
NA


Subcellular localization information  Last modified:26-Mar-2013
WoLF PSORT nuclear;  extracellular;  cytosol; 
Target P Other
SOSUI soluble protein
TMHMM soluble protein
PTS1 Not targeted
Related H-InvDB links LIFEdb LIFEdb; 
JRE-1.4.0 or later is required. Download JRE at Sun's web site.

Protein structure information (GTOP) GTOP Last modified:26-Mar-2013
Start End PDB_ID E-value Identity Coverage SCOP_ID
1 80 1if1A 3e-30 100.0 80/105 a.4.5.23
Related H-InvDB links GTOP GTOP

Gene expression information  H-ANGEL DNAProbeLocator Last modified:26-Mar-2013
Tissue-specific expression  H-ANGEL NA
Probe
information DNAProbeLocator
AceGene AGhsA220418; 
Affymetrix
GeneChip
HG-Focus 202531_at; 
HG-U133 202531_at; 
HG-U133A 202531_at; 
HG-U133A_2 202531_at; 
HG-U133B NA
HG-U133_Plus_2 202531_at; 
HG-U95 669_s_at; 
HG-U95A 669_s_at; 
HG-U95B NA
HG-U95C NA
HG-U95D NA
HG-U95E NA
HG-U95Av2 NA
HuEx-1_0 2828595;  2828596;  2875350;  2875351;  2875352;  2875353;  2875354;  2875355;  2875356;  2875357;  2875358;  2875359;  2875360;  2875361;  2875362;  2875363;  2875364;  2875365;  2875366;  2875367;  2875368;  2875369;  2875370; 
HuGeneFL L05072_s_at; 
Agilent Human 1A Oligo Microarray:PGID215 A_23_P41765; 
Whole Human Genome Oligo Microarray:PGID247 A_23_P41765; 
Related H-InvDB links H-ANGELH-ANGEL DNAProbeLocatorDNAProbeLocator

Disease/pathology information  DiseaseInfo Viewer LEGENDA Last modified:26-Mar-2013
Disease relation Disease name: Gastric cancer (137215);  Disease name: Macrocytic anemia, refractory, of 5q- syndrome (153550); 
Related information in OMIM OMIM ID:  147575;  Title: INTERFERON REGULATORY FACTOR 1
Co-localized orphan diseases OMIM ID:  601888608850611091612554612571
Disease related mutation MutationView:  147575
JRE-1.4.0 or later is required.Download JRE at Sun's web site.
Literature-Extracted GENe-Disease Associations (LEGENDA) LEGENDA Gene name Entrez Gene ID:(3659)
Disease Entrez Gene ID:(3659)
Substance Entrez Gene ID:(3659)
Related H-InvDB links DiseaseInfo ViewerDiseaseInfo ViewerLEGENDALEGENDA

Polymorphism (SNP, indel), microsatellite (Short Tandem Repeat, STR) and repeat information  VaryGene Repeat mask viewer
 Single Nucleotide Polymorphism (SNP) and indel  VaryGene
Location Variation dbSNP ID Strand CDS/UTR Translation
19 .. 19 C/T rs117044112 - 5'UTR
42 .. 42 G/A rs41371350 + 5'UTR
105 ^ 106 -/C rs36102858 - 5'UTR
154 .. 154 C/T rs41527545 + 5'UTR
239 .. 239 T/G rs2070722 + 5'UTR
292 .. 292 G/A rs116079996 - 5'UTR
415 .. 415 G/A rs62383675 - 5'UTR
551 .. 551 C/T rs115894971 - 5'UTR
661 .. 661 A/T rs10213701 - 5'UTR
794 .. 794 G/A rs12657912 - 5'UTR
798 .. 798 A/G rs10035166 - 5'UTR
855 .. 855 A/G rs41407246 + 5'UTR
861 ^ 862 -/CA rs33993327 - 5'UTR
862 ^ 863 -/CA rs35829610 - 5'UTR
1022 .. 1022 C/T rs117282832 - CDS Nonsynonymous[Pro18Ser]
1265 .. 1265 C/G rs17622685 - CDS Nonsynonymous[His99Asp]
 Microsatellite (Short Tandem Repeat, STR)
Location Variation Strand
2388..2409 (gt)11 +
 Microsatellite: Human-Gene diversity Of Life-style related Diseases (H-GOLD)
No data available
 Repeat  Repeat mask viewer
Type Start End Strand
MIR 140 385 -
MIRb 444 539 -
AluSq2 3028 3316 +
L3b 3436 3482 -
Database links H-GOLDHuman-Gene diversity Of Life-style related Diseases(H-GOLD)
Related H-InvDB links VaryGeneVaryGene Repeat mask viewerRepeat Mask Viewer