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: 20-Apr-2012
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 ENST00000245414;  ENST00000405885;  ENST00000437654;  ENST00000439555;  ENST00000458069;  ENST00000459982;  ENST00000463784;  ENST00000472045;  ENST00000476613;  ENST00000493208; 
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 1382447;  2726461;  3409321;  8438156;  9679752;  10395927;  15489334;  17942705;  18497060;  ALL; 
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 1
Interaction partner(s) HIP000103276; 
BIND 122189;  122190; 
DIP NA
MINT NA
HPRD NA
IntAct NA
Database links RefSeq NM_002198; 
Ensembl ENST00000245414;  ENST00000405885;  ENST00000437654;  ENST00000439555;  ENST00000458069;  ENST00000459982;  ENST00000463784;  ENST00000472045;  ENST00000476613;  ENST00000493208; 
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:20-Apr-2012
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:20-Apr-2012
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:20-Apr-2012
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:20-Apr-2012
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:  601888;  608850;  611091;  612554;  612571; 
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 Viewer;  LEGENDALEGENDA; 

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;