H-InvDB x AHG DB
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H-Invitational ID: HIT000031214 Accession number: BC002820 Created date: 26-Mar-2013 Last modified: 27-May-2015
Definition: Alpha-ketoglutarate-dependent dioxygenase alkB homolog 4; EC=1.14.11.-; Alkylated DNA repair protein alkB homolog 4;
 
 

Transcript original information
Accession number BC002820.2
CAGE tag ID NA
EST ID NA
Clone Number MGC:3464 IMAGE:3636984
Experimental resources NBRC: NITE Biological Resource Center  NBRC ; HGPD: Human Gene and Protein Database HGPD ; Antibody: searching human antibodies at "BIO-kaimono.com" Antibody (ALKBH4) ; Catalog: searching experimental product catalogs at "BIO-kaimono.com" Catalog (ALKBH4);
Sequence data provider Provider:MGC/NCI
Annotation project H-Invitational FLcDNA
Length of cDNA 1504[bp] (No. of exon:3)[A:313 T:278 G:473 C:440]
Devision HUM
Molecular type mRNA
Library origin Cell type NA
Tissue type Placenta, choriocarcinoma
Develpmental stage NA
Mini-G
Sequence quality information
CDS feature Complete CDS
Kozak sequence NA
PolyA Site: 1487(+)
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 HIX0006957
Genomic location  G-integra Help Chromosome 7
Location 7q22.1
Position 102097268- 102105288
Strand -
Possible duplicated location(s) NA
Gene structure 3 exon(s)
Database links RefSeq NA
Ensembl NA
Entrez Gene Entrez Gene ID:54784
KEGG GENES KEGG GENES(54784)
GeneCard GeneCardALKBH4*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 HIP000021184
Predicted CDS 6..914;  302[aa];  Orientation:+3; 
Codon Adaptation Index (CAI). 0.831
Database links RefSeq NP_060091
UniProt Q9NXW9
CCDS CCDS5723

Motif information
ORF

length(302),orf(6:914)
MAAAAAETPEVLRECGCKGIRTCLICERQRGSDPPWELPPAKTYRFIYCS
DTGWAVGTEESDFEGWAFPFPGVMLIEDFVTREEEAELVRLMDRDPWKLS
QSGRRKQDYGPKVNFRKQKLKTEGFCGLPSFSREVVRRMGLYPGLEGFRP
VEQCNLDYCPERGSAIDPHLDDAWLWGERLVSLNLLSPTVLSMCREAPGS
LLLCSAPSAAPEALVDSVIAPSRSVLCQEVEVAIPLPARSLLVLTGAARH
QWKHAIHRRHIEARRVCVTFRELSAEFGPGGRQQELGQELLRIALSFQGR
PV*
a.a.
length
InterPro Name
length(204), motif(70:273) 204 IPR027450 Alpha-ketoglutarate-dependent dioxygenase AlkB-like [Domain]
length(114), motif(158:271) 114 IPR005123 Oxoglutarate/iron-dependent dioxygenase [Domain]

Gene function information  Gene family PPI viewer Similarity Search Tool TACT
H-Inv ID HIT000031214
H-Inv cluster ID Locus viewHIX0006957
Accession number BC002820.2
CAGE tag ID NA
EST ID NA
Transcript feature  Help NO; 
Coding potential  Help Protein coding; 
Definition Alpha-ketoglutarate-dependent dioxygenase alkB homolog 4; EC=1.14.11.-; Alkylated DNA repair protein alkB homolog 4;
Similarity category  Help Category: Identical to known human protein(Category I).
Identical to known human protein (Q9NXW9)  [Identity/coverage = 100.0%/100.0%] to Homo sapiens (Human). protein.
Experimental evidence Protein evidence
PubMed ID 14702039154893341797988621269460ALL
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 ALKBH4
HGNC aliases NA
HGNC name alkB, alkylation repair homolog 4 (E. coli)
DDBJ ALKBH4
UniProt ALKBH4
EC number EC 1.14.11.-With 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors; 
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 HIP000021184
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:54784
KEGG GENES KEGG GENES(54784)
GeneCard GeneCardALKBH4*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 oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors (GO:0016706);  oxidoreductase activity (GO:0016491); 

Subcellular localization information  Last modified:27-May-2015
WoLF PSORT nuclear;  cytosol;  extracellular;  Other; 
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:27-May-2015
Start End PDB_ID E-value Identity Coverage SCOP_ID
71 273 2iuwA1 4e-21 20.6 170/202 b.82.2.10
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 AGhsB061112; 
Affymetrix
GeneChip
HG-Focus NA
HG-U133 222228_s_at; 
HG-U133A 222228_s_at; 
HG-U133A_2 222228_s_at; 
HG-U133B NA
HG-U133_Plus_2 222228_s_at; 
HG-U95 86121_at; 
HG-U95A NA
HG-U95B NA
HG-U95C NA
HG-U95D NA
HG-U95E 86121_at; 
HG-U95Av2 NA
HuEx-1_0 3016790;  3016792;  3065009;  3065010;  3065011;  3065012;  3065013;  3065014; 
HuGeneFL NA
Agilent Human 1A Oligo Microarray:PGID215 A_23_P255523; 
Whole Human Genome Oligo Microarray:PGID247 A_23_P255523; 
Related H-InvDB links H-ANGELH-ANGEL DNAProbeLocatorDNAProbeLocator

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
55 .. 55 G/A rs202159964 - CDS Nonsynonymous[Cys17Tyr]
82 .. 82 G/C rs143763401 - CDS Nonsynonymous[Cys26Ser]
93 .. 93 C/T rs139740413 - CDS Nonsynonymous[Arg30Cys]
95 .. 95 C/A rs147258592 - CDS Synonymous[Arg30Arg]
158 .. 158 C/T rs200789104 - CDS Synonymous[Asp51Asp]
170 .. 170 C/T rs149560901 - CDS Synonymous[Ala55Ala]
186 .. 186 T/A rs138120612 - CDS Nonsynonymous[Ser61Thr]
208 .. 208 T/C rs150430613 - CDS Nonsynonymous[Phe68Ser]
219 .. 219 G/A rs201291827 - CDS Nonsynonymous[Gly72Arg]
250 .. 250 G/A rs141453839 - CDS Nonsynonymous[Arg82Gln]
286 .. 286 G/A rs138972661 - CDS Nonsynonymous[Arg94His]
290 .. 290 C/T rs200314163 - CDS Synonymous[Asp95Asp]
315 .. 315 C/T rs200171844 - CDS Nonsynonymous[Arg104Trp]
383 .. 383 C/T rs201905971 - CDS Synonymous[Cys126Cys]
415 .. 415 G/A rs145100726 - CDS Nonsynonymous[Arg137Gln]
419 .. 419 G/T rs200281388 - CDS Nonsynonymous[Arg138Ser]
438 .. 438 C/A rs141457125 - CDS Nonsynonymous[Leu145Met]
456 .. 456 G/A rs146632975 - CDS Nonsynonymous[Val151Ile]
458 .. 458 C/T rs143398138 - CDS Synonymous[Val151Val]
466 .. 466 G/A rs143796434 - CDS Nonsynonymous[Cys154Tyr]
485 .. 485 C/T rs199789000 - CDS Synonymous[Pro160Pro]
500 ^ 501 -/C rs35406380 - CDS
502 .. 502 T/G rs148824415 - CDS Nonsynonymous[Ile166Ser]
518 .. 518 C/T rs201378281 - CDS Synonymous[Asp171Asp]
578 .. 578 G/A rs138324715 - CDS Synonymous[Leu191Leu]
608 .. 608 G/A rs189000631 - CDS Synonymous[Leu201Leu]
720 .. 720 C/T rs150409598 - CDS Nonsynonymous[Arg239Cys]
740 .. 740 C/T rs149696343 - CDS Synonymous[Thr245Thr]
745 .. 745 C/T rs41275227 - CDS Nonsynonymous[Ala247Val]
746 .. 746 G/A rs112279537 - CDS Synonymous[Ala247Ala]
779 .. 779 C/T rs201800893 - CDS Synonymous[Arg258Arg]
785 .. 785 C/T rs147621685 - CDS Synonymous[His260His]
789 .. 789 G/C rs145230697 - CDS Nonsynonymous[Glu262Gln]
806 .. 806 C/T rs139810871 - CDS Synonymous[Cys267Cys]
854 .. 854 G/A rs147434463 - CDS Synonymous[Gln283Gln]
909 .. 909 G/A rs141300734 - CDS Nonsynonymous[Val302Met]
918 .. 918 G/A rs199913773 - 3'UTR
954 .. 954 G/A rs200943538 - 3'UTR
972 .. 972 C/A rs184462614 - 3'UTR
1009 .. 1009 T/C rs113631736 - 3'UTR
1077 .. 1077 C/A rs112794953 - 3'UTR
1109 .. 1109 A/G rs10224440 - 3'UTR
1121 .. 1121 T/A rs188739075 - 3'UTR
1148 .. 1148 C/A rs1138119 + 3'UTR
1159 .. 1159 T/C rs184319362 - 3'UTR
1200 .. 1200 A/G rs4727525 - 3'UTR
1323 .. 1323 G/A rs142174091 - 3'UTR
1326 .. 1326 G/A rs150974003 - 3'UTR
1462 .. 1462 A/G rs78621849 - 3'UTR
1474 .. 1474 A/- rs34313328 - 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
AluSz 1180 1501 +
Database links H-GOLDHuman-Gene diversity Of Life-style related Diseases(H-GOLD)
Related H-InvDB links VaryGeneVaryGene Repeat mask viewerRepeat Mask Viewer