H-InvDB_9.0 released on May 27, 2015.
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Keyword
H-Inv ID (HIT)
H-Inv cluster ID (HIX)
H-Inv protein ID (HIP)
H-Inv gene family/group (HIF)
Accession number
Chromosome number
Chromosome band
Definition*
Data source ID
---
CCDS ID
dbSNP ID (rs number)
EC number
Ensembl ID
EntrezGene ID
FR ID
FR Accession number
GO ID
GO name*
HGNC gene symbol
HGNC gene name*
InterPro ID
InterPro name*
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OMIM title*
Pathway ID
Pathway name*
RefSeq (gene) ID
RefSeq (protein) ID
SCOP ID
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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;
Select format
Flat file
XML file
Nucleotide sequence fasta
Protein sequence fasta
Transcript original information
Accession number
AK298770.1
CAGE tag ID
NA
EST ID
NA
Clone Number
NT2NE2000334
Experimental resources
NBRC
;
HGPD
;
Antibody (IRF1)
;
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
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
AGAGCTCGCCACTCCTTAGTCGAGGCAAGACGTGCGCCCGAGCCCCGCCG AAGCGAGGCCACCCGGAGCCGTGCCCAGTCCACGCCGGCCGTGCCCGGCG GCCTTAAGAACCCGGCAACCTCTGCCTTCTTCCCTCTTCCACTTGGAGTC GCGCTCCGCGCGCCCTCACTGCAGCCCCTGCGTCGCCGGGACCCTCGCGC GCGACCGCCGAATCGCTCCTGCAGCAGAGGCCGATACAAAGCAGGGGAAA AGGAGCCAGATCCCAAGACGTGGAAGGCCAACTTTCGCTGTGCCATGAAC TCCCTGCCAGATATCGAGGAGGTGAAAGACCAGAGCAGGAACAAGGGCAG CTCAGCTGTGCGAGTGTACCGGATGCTTCCACCTCTCACCAAGAACCAGA GAAAAGAAAGAAAGTCGAAGTCCAGCCGAGATGCTAAGAGCAAGGCCAAG AGGAAGTCATGTGGGGATTCCAGCCCTGATACCTTCTCTGATGGACTCAG CAGCTCCACTCTGCCTGATGACCACAGCAGCTACACAGTTCCAGGCTACA TGCAGGACTTGGAGGTGGAGCAGGCCCTGACTCCAGGCTACAAACTCTGG CACCTGCAAAAAACAAGGAAAGTAAATGATTGAAGCAGGGCACTGAAGGT GGGCCTTTGAACAACGCAAGCCTGGATGGAAGTTGAAAGATGAGAGCCCA TCTGTGGAATTCTTTGGACCTTCTGGATATAAGCCCCAGTCGTCTGTCGG ATATGTTACAGAGAATATCCTCTCCTCTTCCAGTCTCTGGCTCGCCTTTC CACTAGGTTTTTTGTTTTTTTTTTTCTGAGACAGAGTCTCGCTCTCTCAC CCAGGCTGGAGTGCATGGCATGATCTCGGCTCACTGCAACCTCCACCTCC CGAGTTCGAGTGATTCTCCTGCCTCAGCGTCCCGG
Gene structure information
H-Inv cluster ID
HIX0005159
Genomic location
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
IRF1
;
*GeneCards is provided free to academic non-profit institutions.
Related H-InvDB links
H-DBAS
;
G-integra
;
cDNA-genome alignment
;
Predicted CDS information
HIP ID
HIP000359595
Predicted CDS
1..633; 210[aa]; Orientation:+1;
Codon Adaptation Index (CAI).
0.79
RARHSLVEARRAPEPRRSEATRSRAQSTPAVPGGLKNPATSAFFPLPLGV ALRAPSLQPLRRRDPRARPPNRSCSRGRYKAGEKEPDPKTWKANFRCAMN SLPDIEEVKDQSRNKGSSAVRVYRMLPPLTKNQRKERKSKSSRDAKSKAK RKSCGDSSPDTFSDGLSSSTLPDDHSSYTVPGYMQDLEVEQALTPGYKLW HLQKTRKVND*
Motif information
a.a.
length
InterPro
Name
127
IPR001346
Interferon regulatory factor DNA-binding domain [Domain]
84
IPR001346
Interferon regulatory factor DNA-binding domain [Domain]
59
IPR011991
Winged helix-turn-helix DNA-binding domain [Domain]
53
IPR001346
Interferon regulatory factor DNA-binding domain [Domain]
Gene function information
H-Inv ID
HIT000493394
H-Inv cluster ID
HIX0005159
Accession number
AK298770.1
CAGE tag ID
NA
EST ID
NA
Transcript feature
NO;
Splicing isoform
Coding potential
Protein coding;
Definition
Similar to Interferon regulatory factor 1; IRF-1;
Similarity category
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
1382447
;
2726461
;
3409321
;
8438156
;
9679752
;
10094406
;
10395927
;
11244049
;
11846971
;
11846974
;
15226432
;
15489334
;
15509808
;
16932750
;
17516545
;
17942705
;
18084608
;
18497060
;
18641303
;
19404407
;
19851330
;
20049431
;
21389130
;
22200613
;
22367195
;
ALL
;
Gene family/group
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)
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
IRF1
;
*GeneCards is provided free to academic non-profit institutions.
etc
Human-Gene diversity Of Life-style related Diseases
;
Curation status
Auto-annotated
Notes
NA
Related H-InvDB links
Gene family;
Similarity Search Tool;
TACT
;
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;
JRE-1.4.0 or later is required.
Download JRE at
Sun's web site.
Protein structure information (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
Disease/pathology information
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)
Gene name
Entrez Gene ID:(3659)
Disease
Entrez Gene ID:(3659)
Substance
Entrez Gene ID:(3659)
Related H-InvDB links
DiseaseInfo Viewer
;
LEGENDA
;
Polymorphism (SNP, indel), microsatellite (Short Tandem Repeat, STR) and repeat information
Single Nucleotide Polymorphism (SNP) and indel
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
Type
Start
End
Strand
L1M5
700
804
-
AluSx3
808
934
-
Database links
Human-Gene diversity Of Life-style related Diseases(H-GOLD)
;
Related H-InvDB links
VaryGene
;
Repeat Mask Viewer
;