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: HIT000268586 Accession number: CR541713 Created date: 26-Mar-2013 Last modified: 20-Apr-2012
Definition: Interferon regulatory factor 1.
 
 

Transcript original information
Accession number CR541713.1
CAGE tag ID NA
EST ID NA
Clone Number RZPDo834B0329D
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 975[bp] (No. of exon:9)[A:259 T:182 G:269 C:265]
Devision HUM
Molecular type mRNA
Library origin Cell type NA
Tissue type NA
Develpmental stage NA
Mini-G
Sequence quality information
CDS feature C-truncated
Kozak sequence NA
PolyA NA
Vector/adapter sequence NA
Frame shift NA
Remaining intron NA
Splice site acceptor (NAGNAG) CAGGAG; 
Transcript quality feature Truncation; 
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 131819646- 131825170
Strand -
Possible duplicated location(s) NA
Gene structure 9 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 HIP000084307
Predicted CDS 1..975;  325[aa];  Orientation:+1; 
Codon Adaptation Index (CAI). 0.822
Database links RefSeq NP_002189; 
UniProt P10914;  Q6FHN8; 
CCDS CCDS4155; 

Motif information
ORF

length(325),orf(1:975) MPITRMRMRPWLEMQINSNQIPGLIWINKEEMIFQIPWKHAAKHGWDINK DACLFRSWAIHTGRYKAGEKEPDPKTWKANFRCAMNSLPDIEEVKDQSRN KGSSAVRVYRMLPPLTKNQRKERKSKSSRDAKSKAKRKSCGDSSPDTFSD GLSSSTLPDDHSSYTVPGYMQDLEVEQALTPALSPCAVSSTLPDWHIPVE VVPDSTSDLYNFQVSPMPSTSEATTDEDEEGKLPEDIMKLLEQSEWQPTN VDGKGYLLNEPGVQPTSVYGDFSCKEEPEIDSPGGDIGLSLQRVFTDLKN MDATWLDSLLTPVRLPSIQAIPCAP 		a.a.
length		 InterPro Name
length(315), motif(1:315) 315 IPR017431 Interferon regulatory factor-1/2 [Family]
length(114), motif(1:114) 114 IPR001346 Interferon regulatory factor [Domain]
length(112), motif(2:113) 112 IPR011991 Winged helix-turn-helix transcription repressor DNA-binding [Domain]
length(109), motif(5:113) 109 IPR001346 Interferon regulatory factor [Domain]
length(20), motif(7:26) 20 IPR001346 Interferon regulatory factor [Domain]
length(34), motif(26:59) 34 IPR019817 Interferon regulatory factor, conserved site [Conserved_site]
length(14), motif(33:46) 14 IPR001346 Interferon regulatory factor [Domain]
length(18), motif(51:68) 18 IPR001346 Interferon regulatory factor [Domain]
length(23), motif(74:96) 23 IPR001346 Interferon regulatory factor [Domain]

Gene function information  Gene family PPI viewer Similarity Search Tool TACT
H-Inv ID HIT000268586
H-Inv cluster ID Locus viewHIX0005159
Accession number CR541713.1
CAGE tag ID NA
EST ID NA
Transcript feature  Help NO; 
Coding potential  Help Protein coding; 
Definition Interferon regulatory factor 1.
Similarity category  Help Category: Identical to known human protein(Category I).
Identical to known human protein (NP_002189)  [Identity/coverage = 100.0%/100.0%] to Homo sapiens protein.
Experimental evidence Protein evidence
PubMed ID NA
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 IRF1
UniProt NA
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 HIP000084307
No. of interaction 12
Interaction partner(s) HIP000026951;  HIP000027985;  HIP000069516;  HIP000085289;  HIP000095247;  HIP000096767;  HIP000106166;  HIP000106166;  HIP000106180;  HIP000136362;  HIP000148140;  HIP000148140; 
BIND NA
DIP 134247E;  134265E;  134301E;  134491E;  134506E; 
MINT MINT-2844071;  MINT-2844096;  MINT-2844143;  MINT-2844192;  MINT-3374405;  MINT-3374425; 
HPRD 00292;  00891;  01273;  03690;  07520; 
IntAct EBI-2341681;  EBI-2341609;  EBI-2341837;  EBI-2342029;  EBI-2341978; 
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

Gene ontology information
Molecular function transcription factor activity (GO:0003700); 
Biological process regulation of transcription, DNA-dependent (GO:0006355); 
Cellular component nucleus (GO:0005634); 

Subcellular localization information  Last modified:20-Apr-2012
WoLF PSORT nuclear; 
Target P Not predicted
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
7 111 1if1A 9e-47 100.0 105/105 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 NA
HG-U133 NA
HG-U133A NA
HG-U133A_2 NA
HG-U133B NA
HG-U133_Plus_2 NA
HG-U95 NA
HG-U95A NA
HG-U95B NA
HG-U95C NA
HG-U95D NA
HG-U95E NA
HG-U95Av2 NA
HuEx-1_0 2875351;  2875353;  2875356;  2875358;  2875360;  2875362;  2875363;  2875364;  2875365;  2875366;  2875372; 
HuGeneFL NA
Agilent Human 1A Oligo Microarray:PGID215 NA
Whole Human Genome Oligo Microarray:PGID247 NA
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
102 .. 102 C/T rs117282832 - CDS Synonymous[Phe34Phe]
345 .. 345 C/G rs17622685 - CDS Synonymous[Leu115Leu]
555 .. 555 G/A rs9282762 + CDS Synonymous[Pro185Pro]
579 .. 579 C/T rs17848410 + CDS Synonymous[Pro193Pro]
852 .. 852 G/C rs113976540 - CDS Synonymous[Gly284Gly]
943 .. 943 T/C rs55746618 - CDS Synonymous[Leu315Leu]
 Microsatellite (Short Tandem Repeat, STR)
No data available
 Microsatellite: Human-Gene diversity Of Life-style related Diseases (H-GOLD)
No data available
 Repeat  Repeat mask viewer
No data available
Database links H-GOLDHuman-Gene diversity Of Life-style related Diseases(H-GOLD); 
Related H-InvDB links VaryGeneVaryGene;  Repeat mask viewerRepeat Mask Viewer;