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: HIT000058452 Accession number: AB015856 Created date: 26-Mar-2013 Last modified: 20-Apr-2012
Definition: Cyclic AMP-dependent transcription factor ATF-6 alpha; cAMP-dependent transcription factor ATF-6 alpha; Activating transcription factor 6 alpha; ATF6-alpha; Contains: Processed cyclic AMP-dependent transcription factor ATF-6 alpha;
 
 

Transcript original information
Accession number AB015856.1
CAGE tag ID NA
EST ID NA
Clone Number NA
Experimental resources NBRC: NITE Biological Resource Center  NBRC ; HGPD: Human Gene and Protein Database HGPD ; Antibody: searching human antibodies at "BIO-kaimono.com" Antibody (ATF6) ; Catalog: searching experimental product catalogs at "BIO-kaimono.com" Catalog (ATF6);
Sequence data provider NA
Annotation project NA
Length of cDNA 2509[bp] (No. of exon:16)[A:746 T:650 G:534 C:579]
Devision HUM
Molecular type mRNA
Library origin Cell type NA
Tissue type NA
Develpmental stage NA
Mini-G
Sequence quality information
CDS feature Complete CDS
Kozak sequence NA
PolyA NA
Vector/adapter sequence NA
Frame shift NA
Remaining intron NA
Splice site acceptor (NAGNAG) CAGGAG;  TAGCAG; 
Transcript quality feature NA
Notes NA

Gene structure information  G-integra H-DBAS cDNA-genome alignment
H-Inv cluster ID HIX0001253
Genomic location  G-integra Help Chromosome 1
Location 1q23.3
Position 161736084- 161928872
Strand +
Possible duplicated location(s) NA
Gene structure 16 exon(s)
Database links RefSeq NM_007348; 
Ensembl ENST00000367942;  ENST00000476437; 
Entrez Gene Entrez Gene ID:22926; 
KEGG GENES KEGG GENES(22926); 
GeneCard GeneCardATF6;  *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 HIP000055894
Predicted CDS 69..2081;  670[aa];  Orientation:+3; 
Codon Adaptation Index (CAI). 0.718

Motif information
ORF

length(670),orf(69:2081) MGEPAGVAGTMESPFSPGLFHRLDEDWDSALFAELGYFTDTDELQLEAAN ETYENNFDNLDFDLDLMPWESDIWDINNQICTVKDIKAEPQPLSPASSSY SVSSPRSVDSYSSTQHVPEELDLSSSSQMSPLSLYGENSNSLSSPEPLKE DKPVTGSRNKTENGLTPKKKIQVNSKPSIQPKPLLLPAAPKTQTNSSVPA KTIIIQTVPTLMPLAKQQPIISLQPAPTKGQTVLLSQPTVVQLQAPGVLP SAQPVLAVAGGVTQLPNHVVNVVPAPSANSPVNGKLSVTKPVLQSTMRNV GSDIAVLRRQQRMIKNRESACQSRKKKKEYMLGLEARLKAALSENEQLKK ENGTLKRQLDEVVSENQRLKVPSPKRRVVCVMIVLAFIILNYGPMSMLEQ DSRRMNPSVSPANQRRHLLGFSAKEAQDTSDGIIQKNSYRYDHSVSNDKA LMVLTEEPLLYIPPPPCQPLINTTESLRLNHELRGWVHRHEVERTKSRRM TNNQQKTRILQGALEQGSNSQLMAVQYTETTSSISRNSGSELQVYYASPR SYQDFFEAIRRRGDTFYVVSFRRDHLLLPATTHNKTTRPKMSIVLPAINI NENVINGQDYEVMMQIDCQVMDTRILHIKSSSVPPYLRDQQRNQTNTFFG SPPAATEATHVVSTIPESLQ* 		a.a.
length		 InterPro Name
length(65), motif(304:368) 65 IPR004827 Basic-leucine zipper (bZIP) transcription factor [Domain]
length(64), motif(306:369) 64 IPR004827 Basic-leucine zipper (bZIP) transcription factor [Domain]
length(60), motif(307:366) 60 IPR011616 bZIP transcription factor, bZIP-1 [Domain]
length(15), motif(312:326) 15 IPR004827 Basic-leucine zipper (bZIP) transcription factor [Domain]

Gene function information  Gene family PPI viewer Similarity Search Tool TACT
H-Inv ID HIT000058452
H-Inv cluster ID Locus viewHIX0001253
Accession number AB015856.1
CAGE tag ID NA
EST ID NA
Transcript feature  Help Representative H-Inv IDRepresentative transcript;  Splicing isoformSplicing isoform
Coding potential  Help Protein coding; 
Definition Cyclic AMP-dependent transcription factor ATF-6 alpha; cAMP-dependent transcription factor ATF-6 alpha; Activating transcription factor 6 alpha; ATF6-alpha; Contains: Processed cyclic AMP-dependent transcription factor ATF-6 alpha;
Similarity category  Help Category: Identical to known human protein(Category I).
Identical to known human protein (P18850)  [Identity/coverage = 99.701%/100.0%] to Homo sapiens (Human). protein.
Experimental evidence Protein evidence
PubMed ID 2516827;  9271374;  9837962;  10564271;  11158310;  11163209;  11483355;  14699159;  15489334;  16710414;  ALL; 
Gene family/group Gene family H-Inv gene family/group ID HIF0001703
Gene family/group name bZIP transcription factor, bZIP-1 (IPR011616).
Evidence motif (InterPro) ID IPR011616
Gene symbol/name HGNC symbol ATF6
HGNC aliases NA
HGNC name activating transcription factor 6
DDBJ ATF6
UniProt ATF6
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 HIP000055894
No. of interaction 22
Interaction partner(s) HIP000023587;  HIP000025459;  HIP000025459;  HIP000028704;  HIP000031216;  HIP000034648;  HIP000034648;  HIP000054415;  HIP000069159;  HIP000069159;  HIP000076344;  HIP000078380;  HIP000078380;  HIP000085732;  HIP000105729;  HIP000105729;  HIP000112600;  HIP000112600;  HIP000120476;  HIP000136954;  HIP000136954;  HIP000251490; 
BIND NA
DIP 111887E;  112153E;  116672E;  117389E; 
MINT MINT-2871832;  MINT-2871851;  MINT-2871870;  MINT-66459;  MINT-66467;  MINT-66586;  MINT-66643;  MINT-66728;  MINT-67493;  MINT-67539;  MINT-7945693; 
HPRD 00042;  00247;  00260;  01163;  01475;  03407;  07816;  10812;  13236;  15998; 
IntAct EBI-956686;  EBI-754720;  EBI-952438;  EBI-757246;  EBI-757390;  EBI-753874;  EBI-754447;  EBI-1082246;  EBI-753844;  EBI-1079569;  EBI-1072767;  EBI-754258;  EBI-760476;  EBI-760616;  EBI-952402; 
Database links RefSeq NM_007348; 
Ensembl ENST00000367942;  ENST00000476437; 
Entrez Gene Entrez Gene ID:22926; 
KEGG GENES KEGG GENES(22926); 
GeneCard GeneCardATF6;  *GeneCards is provided free to academic non-profit institutions.
etc H-GOLDHuman-Gene diversity Of Life-style related Diseases; 
Curation status Human curated
Notes NA
Related H-InvDB links bZIP transcription factor, bZIP-1 (IPR011616). 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 sequence-specific DNA binding (GO:0043565);  transcription factor activity (GO:0003700);  protein dimerization activity (GO:0046983); 
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 Other
SOSUI membrane 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
274 327 1sknP 1e-04 22.6 53/100 a.37.1.1
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 AGhsA051115; 
Affymetrix
GeneChip		 HG-Focus 203952_at; 
HG-U133 203952_at; 
HG-U133A 203952_at; 
HG-U133A_2 203952_at; 
HG-U133B NA
HG-U133_Plus_2 203952_at; 
HG-U95 338_at; 
HG-U95A 338_at; 
HG-U95B NA
HG-U95C NA
HG-U95D NA
HG-U95E NA
HG-U95Av2 NA
HuEx-1_0 2363921;  2363922;  2363923;  2363925;  2363928;  2363929;  2363931;  2363933;  2363934;  2363938;  2363940;  2363951;  2363955;  2363956;  2363957;  2363960;  2363961;  2363966;  2363978;  2363979;  2441017;  2441037; 
HuGeneFL AF005887_at; 
Agilent Human 1A Oligo Microarray:PGID215 A_23_P62907; 
Whole Human Genome Oligo Microarray:PGID247 A_23_P62907; 
Related H-InvDB links H-ANGELH-ANGEL;  DNAProbeLocatorDNAProbeLocator; 

Disease/pathology information  DiseaseInfo Viewer LEGENDA Last modified:20-Apr-2012
Disease relation Disease name:NA
Related information in OMIM OMIM ID:NA Title:NA
Co-localized orphan diseases OMIM ID:  115665;  116600;  155600;  600975;  605225;  605606;  606788;  606852;  606928;  607317;  607671;  608543;  608553;  608995;  610320;  612367;  612596; 
Disease related mutation NA
Literature-Extracted GENe-Disease Associations (LEGENDA) LEGENDA Gene name Entrez Gene ID:(22926)
Disease Entrez Gene ID:(22926)
Substance Entrez Gene ID:(22926)
Related H-InvDB links DiseaseInfo ViewerDiseaseInfo Viewer;  LEGENDALEGENDA; 

Evolutionary information  Evola Help Last modified:20-Apr-2012
Relationship Species Accession number MGI Links
Orthology Mus sp. (Mouse) AK036335 MGI:2400756 G-integraG-integra
Orthology Bos sp. (Cow) ENSBTAT00000006888 G-integraG-integra
Orthology Equus sp. (Horse) ENSECAT00000023918 G-integraG-integra
Orthology Gallus sp. (Chicken) ENSGALT00000040110 G-integraG-integra
Orthology Oryzias sp. (Medaka) ENSORLT00000020862 G-integraG-integra
Orthology Pongo sp. (Orangutan) ENSPPYT00000000715 G-integraG-integra
Orthology Danio sp. (Zebrafish) NM_001110519 G-integraG-integra
Orthology Rattus sp. (Rat) XM_001076843 G-integraG-integra
Orthology Macaca sp. (Macaque) XM_001118153 G-integraG-integra
Orthology Pan sp. (Chimpanzee) XM_001174215 G-integraG-integra
Orthology Monodelphis sp. (Opossum) XM_001369506 G-integraG-integra
Orthology Canis sp. (Dog) XM_545777 G-integraG-integra
Phylogenetic tree [View by ATV]
 Neighbor-joining (phb) 
Related H-InvDB links EvolaEvola;  dN/dS (under constraction); 

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
32 .. 32 A/G rs60394665 + 5'UTR
115 .. 115 G/T rs112863172 + CDS Nonsynonymous[Ser16Ile]
127 .. 127 T/C rs35284289 + CDS Nonsynonymous[Phe20Ser]
173 .. 173 T/C rs2070151 + CDS Synonymous[Leu35Leu]
217 .. 217 A/G rs56394151 + CDS Nonsynonymous[Asn50Ser]
267 .. 267 A/G/T rs1058405 + CDS
269 .. 269 G/A rs1135982 + CDS Nonsynonymous[Met67Ile]
338 .. 338 C/T rs2271013 - CDS Synonymous[Pro90Pro]
377 .. 377 A/G rs2271012 - CDS Synonymous[Ser103Ser]
394 .. 394 A/G rs2271011 - CDS Nonsynonymous[Asp109Gly]
447 ^ 448 -/A rs34354288 + CDS
490 .. 490 G/A rs61801254 + CDS Nonsynonymous[Ser141Asn]
501 .. 501 C/G rs2070150 + CDS Nonsynonymous[Pro145Ala]
537 .. 537 T/C rs1135983 + CDS Nonsynonymous[Ser157Pro]
844 .. 844 C/T rs11799951 + CDS Nonsynonymous[Ala259Val]
912 .. 912 G/C rs78561001 + CDS Nonsynonymous[Val282Leu]
929 .. 929 C/T rs16847240 + CDS Synonymous[Ser287Ser]
949 .. 949 A/G rs79010144 + CDS Nonsynonymous[Gln294Arg]
1098 .. 1098 G/C rs2134689 - CDS Nonsynonymous[Glu344Gln]
1143 .. 1143 C/G rs80112842 + CDS Nonsynonymous[Leu359Val]
1147 .. 1147 A/G rs75594989 + CDS Nonsynonymous[Asp360Gly]
1484 .. 1484 C/T rs1135984 + CDS Synonymous[Asn472Asn]
1559 .. 1559 A/T rs1058408 + CDS Synonymous[Ser497Ser]
1937 ^ 1938 -/A rs34529107 + CDS
1964 .. 1964 A/G rs9482 + CDS Synonymous[Ser632Ser]
2110 .. 2110 C/T rs78713669 + 3'UTR
2121 .. 2121 G/A rs76485377 + 3'UTR
2205 .. 2205 G/A rs13401 + 3'UTR
2251 .. 2251 C/G rs17417647 + 3'UTR
2348 .. 2348 T/A rs74579405 + 3'UTR
2408 .. 2408 A/G rs1136046 + 3'UTR
2429 .. 2429 T/C rs112942257 + 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
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;