H-InvDB x AHG DB
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H-InvDB_9.0 released on May 27, 2015.
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H-Invitational ID: HIT000493394 Accession number: AK298770 Created date: 26-Mar-2013 Last modified: 27-May-2015
Definition: Similar to Interferon regulatory factor 1; IRF-1;
 
 

Transcript original information
Accession number AK298770.1
CAGE tag ID NA
EST ID NA
Clone Number NT2NE2000334
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 935[bp] (No. of exon:6)[A:217 T:184 G:248 C:286]
Devision HUM
Molecular type mRNA
Library origin Cell type teratocarcinoma
Tissue type NA
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 NA
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 131776132- 131826465
Strand -
Possible duplicated location(s) NA
Gene structure 6 exon(s)
Database links RefSeq NA
Ensembl NA
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 HIP000359595
Predicted CDS 1..633;  210[aa];  Orientation:+1; 
Codon Adaptation Index (CAI). 0.79

Motif information
ORF

length(210),orf(1:633)
RARHSLVEARRAPEPRRSEATRSRAQSTPAVPGGLKNPATSAFFPLPLGV
ALRAPSLQPLRRRDPRARPPNRSCSRGRYKAGEKEPDPKTWKANFRCAMN
SLPDIEEVKDQSRNKGSSAVRVYRMLPPLTKNQRKERKSKSSRDAKSKAK
RKSCGDSSPDTFSDGLSSSTLPDDHSSYTVPGYMQDLEVEQALTPGYKLW
HLQKTRKVND*
a.a.
length
InterPro Name
length(127), motif(1:127) 127 IPR001346 Interferon regulatory factor DNA-binding domain [Domain]
length(84), motif(45:128) 84 IPR001346 Interferon regulatory factor DNA-binding domain [Domain]
length(59), motif(75:133) 59 IPR011991 Winged helix-turn-helix DNA-binding domain [Domain]
length(53), motif(75:127) 53 IPR001346 Interferon regulatory factor DNA-binding domain [Domain]

Gene function information  Gene family PPI viewer Similarity Search Tool TACT
H-Inv ID HIT000493394
H-Inv cluster ID Locus viewHIX0005159
Accession number AK298770.1
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 = 100.0%/36.62%] to Homo sapiens (Human). protein.
Experimental evidence Protein evidence
PubMed ID 138244727264613409321843815696797521009440610395927112440491184697111846974152264321548933415509808169327501751654517942705180846081849706018641303194044071985133020049431213891302220061322367195ALL
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 HIP000359595
No. of interaction NA
Interaction partner(s) NA
BIND NA
DIP NA
MINT NA
HPRD NA
IntAct NA
Database links RefSeq NA
Ensembl NA
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:27-May-2015
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:27-May-2015
Start End PDB_ID E-value Identity Coverage SCOP_ID
1 27 1if1A 2e-07 100.0 27/105 a.4.5.23
Related H-InvDB links GTOP GTOP

Disease/pathology information  DiseaseInfo Viewer LEGENDA Last modified:27-May-2015
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 NA
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
53 .. 53 G/C rs11242115 + CDS Nonsynonymous[Ser18Thr]
144 .. 144 T/C rs10900809 + CDS Synonymous[Leu48Leu]
156 .. 156 C/T rs960757 + CDS Synonymous[Leu52Leu]
159 .. 159 C/T rs111285485 - CDS Synonymous[Arg53Arg]
203 .. 203 G/A rs17848393 + CDS Nonsynonymous[Arg68Gln]
241 .. 241 G/C rs137993322 - CDS Nonsynonymous[Ala81Pro]
315 .. 315 C/T rs199589588 - CDS Synonymous[Ile105Ile]
361 .. 361 C/T rs146963938 - CDS AA-STOP[Arg121*]
366 .. 366 G/A rs149276593 - CDS Synonymous[Val122Val]
387 .. 387 C/G rs17622685 - CDS Synonymous[Leu129Leu]
444 .. 444 G/A rs200378665 - CDS Synonymous[Lys148Lys]
495 .. 495 A/T rs185307675 - CDS Synonymous[Gly165Gly]
534 .. 534 C/T rs138606864 - CDS Synonymous[Tyr178Tyr]
549 .. 549 C/T rs201815197 - CDS Synonymous[Tyr183Tyr]
566 .. 566 T/C rs150089120 - CDS Nonsynonymous[Val189Ala]
599 .. 599 G/A rs141757666 - CDS AA-STOP[Trp200*]
652 .. 652 G/A rs148004319 - 3'UTR
730 .. 730 T/A rs191629574 - 3'UTR
793 .. 793 C/T rs187044276 - 3'UTR
794 .. 794 G/A rs182412980 - 3'UTR
 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
Type Start End Strand
L1M5 700 804 -
AluSx3 808 934 -
Database links H-GOLDHuman-Gene diversity Of Life-style related Diseases(H-GOLD)
Related H-InvDB links VaryGeneVaryGene Repeat mask viewerRepeat Mask Viewer