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H-Invitational ID: HIT000329559 Accession number: AB209624 Created date: 26-Mar-2013 Last modified: 27-May-2015
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 5152[bp] (No. of exon:2)[A:1227 T:1215 G:1470 C:1240]
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 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 131818777- 131824724
Strand -
Possible duplicated location(s) NA
Gene structure 2 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 HIP000155018
Predicted CDS 1375..2064;  229[aa];  Orientation:+1; 
Codon Adaptation Index (CAI). 0.797

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 = 100.0%/12.62%] 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 HIP000155018
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;  extracellular;  cytosol; 
Target P Other
SOSUI soluble protein
TMHMM soluble protein
PTS1 Twilight zone
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 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:27-May-2015
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: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
39 .. 39 C/T rs180858079 - 5'UTR
42 .. 42 G/A rs41371350 + 5'UTR
108 ^ 109 -/C rs36102858 - 5'UTR
154 .. 154 C/T rs41527545 + 5'UTR
167 .. 167 C/T rs142365706 - 5'UTR
239 .. 239 T/G rs2070722 + 5'UTR
415 .. 415 G/A rs62383675 - 5'UTR
485 .. 485 G/A rs187998443 - 5'UTR
520 .. 520 A/G rs140838953 - 5'UTR
551 .. 551 C/T rs115894971 - 5'UTR
579 .. 579 T/C rs143840473 - 5'UTR
661 .. 661 A/T rs10213701 - 5'UTR
692 .. 692 C/G rs139715683 - 5'UTR
794 .. 794 G/A rs12657912 - 5'UTR
798 .. 798 A/G rs10035166 - 5'UTR
832 .. 832 G/A rs186341376 - 5'UTR
855 .. 855 A/G rs41407246 + 5'UTR
861 ^ 862 -/CA rs33993327 - 5'UTR
862 ^ 863 -/CA rs35829610 - 5'UTR
863 ^ 864 -/CA rs142117404 - 5'UTR
989 .. 989 G/T rs199614102 - 5'UTR
1022 .. 1022 C/T rs117282832 - 5'UTR
1119 .. 1119 G/C rs137993322 - 5'UTR
1193 .. 1193 C/T rs199589588 - 5'UTR
1239 .. 1239 C/T rs146963938 - 5'UTR
1244 .. 1244 G/A rs149276593 - 5'UTR
1265 .. 1265 C/G rs17622685 - 5'UTR
1362 .. 1362 G/A rs200597334 - 5'UTR
1380 .. 1380 C/T rs113737077 - CDS Synonymous[Pro2Pro]
1431 .. 1431 G/A rs200378665 - CDS Synonymous[Lys19Lys]
1542 .. 1542 C/T rs201796901 - CDS Synonymous[Leu56Leu]
1547 .. 1547 G/A rs116022693 - CDS Nonsynonymous[Arg58Gln]
1590 .. 1590 A/T rs185307675 - CDS Synonymous[Gly72Gly]
1629 .. 1629 C/T rs138606864 - CDS Synonymous[Tyr85Tyr]
1644 .. 1644 C/T rs201815197 - CDS Synonymous[Tyr90Tyr]
1661 .. 1661 T/C rs150089120 - CDS Nonsynonymous[Val96Ala]
1699 .. 1699 T/C rs17848404 + CDS Nonsynonymous[Trp109Arg]
1706 .. 1706 A/G rs9282761 + CDS Nonsynonymous[Glu111Gly]
1797 .. 1797 A/G rs9282763 + CDS Synonymous[Gly141Gly]
1858 .. 1858 T/C rs2070724 + CDS Nonsynonymous[Ser162Pro]
1875 .. 1875 A/G rs9282762 + CDS Synonymous[Pro167Pro]
1899 .. 1899 C/T rs17848410 + CDS Synonymous[Pro175Pro]
1928 .. 1928 C/T rs146891501 - CDS Nonsynonymous[Pro185Leu]
1979 .. 1979 C/T rs145101897 - CDS Nonsynonymous[Thr202Ile]
2064 .. 2064 A/C rs10214312 - CDS STOP-AA[*230Cys]
2139 .. 2139 G/A rs17848412 + 3'UTR
2142 .. 2142 G/A rs2070725 + 3'UTR
2175 .. 2175 C/T rs17848414 + 3'UTR
2192 .. 2192 G/T rs2070726 + 3'UTR
2221 .. 2221 C/A rs111296401 - 3'UTR
2272 .. 2272 T/G rs201918473 + 3'UTR
2297 .. 2297 G/T rs10068266 - 3'UTR
2344 .. 2344 G/A rs79452489 - 3'UTR
2368 .. 2368 C/T rs142423590 - 3'UTR
2372 .. 2372 T/C rs10053046 - 3'UTR
2382 .. 2382 G/C rs61175929 - 3'UTR
2387 ^ 2388 -/GTGTG/GTGTGTG rs34598713 - 3'UTR
2388 ^ 2389 -/G/GTGTGTGTG rs111906639 - 3'UTR
2406 ^ 2407 -/GTGT rs34203943 - 3'UTR
2408 ^ 2409 -/GT rs72126780 - 3'UTR
2409 ^ 2410 -/GT rs142244361 - 3'UTR
2421 .. 2421 A/G rs137941562 - 3'UTR
2434 .. 2434 G/A rs188867044 - 3'UTR
2526 .. 2526 A/C rs141364775 - 3'UTR
2642 .. 2642 T/C rs111857237 - 3'UTR
2684 .. 2684 C/T rs10068129 - 3'UTR
2742 .. 2742 G/A rs17848418 + 3'UTR
2783 .. 2783 G/A rs183979567 - 3'UTR
2793 .. 2793 A/G rs191461092 - 3'UTR
2933 .. 2933 C/T rs17622656 - 3'UTR
3031 .. 3031 G/A rs186658090 - 3'UTR
3053 .. 3053 A/G rs111607221 - 3'UTR
3074 .. 3074 G/A rs145193230 - 3'UTR
3098 .. 3098 C/T rs140260397 - 3'UTR
3106 .. 3106 T/C rs10051145 - 3'UTR
3361 .. 3361 A/- rs34576901 - 3'UTR
3366 .. 3366 G/A rs143836135 - 3'UTR
3378 .. 3378 G/A rs148975322 - 3'UTR
3506 .. 3506 G/C rs114690554 - 3'UTR
3577 .. 3577 C/T rs145798523 - 3'UTR
3624 .. 3624 T/G rs56112055 - 3'UTR
3655 .. 3655 G/T rs2070727 + 3'UTR
3755 .. 3755 G/A rs201186445 - 3'UTR
3774 .. 3774 G/A rs201857248 - 3'UTR
3788 .. 3788 G/A rs199626190 - 3'UTR
3799 .. 3799 A/G rs200736826 - 3'UTR
3839 .. 3839 T/C rs146613421 - 3'UTR
3875 .. 3875 G/C rs113976540 - 3'UTR
3924 .. 3924 C/T rs184129249 - 3'UTR
3925 .. 3925 G/A rs193125478 - 3'UTR
3953 .. 3953 G/A rs2070728 + 3'UTR
3960 .. 3960 A/G rs7701588 - 3'UTR
3968 .. 3968 G/A rs149828553 - 3'UTR
4000 .. 4000 A/G rs188983738 - 3'UTR
4001 .. 4001 T/G rs55935432 - 3'UTR
4004 .. 4004 G/T rs41502246 + 3'UTR
4009 .. 4009 G/T rs2070729 + 3'UTR
4130 .. 4130 C/T rs2070730 + 3'UTR
4131 .. 4131 T/C rs113257045 - 3'UTR
4132 .. 4132 A/G rs2070731 + 3'UTR
4239 .. 4239 G/A rs142853835 - 3'UTR
4252 .. 4252 T/C rs55746618 - 3'UTR
4324 .. 4324 C/G rs56288038 - 3'UTR
4429 .. 4429 C/T rs17848427 + 3'UTR
4438 .. 4438 T/C rs190321767 - 3'UTR
4668 .. 4668 C/T rs17848428 + 3'UTR
4715 .. 4715 G/A rs34850771 + 3'UTR
4731 .. 4731 C/A/T rs17848429 + 3'UTR
4733 .. 4733 C/G rs35642338 + 3'UTR
4796 .. 4796 T/C rs17848431 + 3'UTR
4799 .. 4799 G/A rs35178118 + 3'UTR
4804 .. 4804 G/A rs839 + 3'UTR
4940 .. 4940 C/A rs17848433 + 3'UTR
4982 .. 4982 C/T rs17848434 + 3'UTR
5028 .. 5028 G/C rs145347120 - 3'UTR
5115 .. 5115 A/G rs115945411 - 3'UTR
5125 .. 5125 G/T rs139911206 - 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
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