H-InvDB x AHG DB
Transcript view
H-InvDB_9.0 released on May 27, 2015.
Search by for Advanced Search
Home Quick guide Navi BLAST Site map Download Contact us Help
H-Invitational ID: HIT000094334 Accession number: BC036280 Created date: 26-Mar-2013 Last modified: 27-May-2015
Definition: Similar to Breast carcinoma-amplified sequence 3 isoform 2.
 
 

Transcript original information
Accession number BC036280.1
CAGE tag ID NA
EST ID NA
Clone Number IMAGE:3917955
Experimental resources NBRC: NITE Biological Resource Center  NBRC ; HGPD: Human Gene and Protein Database HGPD ;
Sequence data provider NA
Annotation project NA
Length of cDNA 2108[bp] (No. of exon:4)[A:489 T:467 G:551 C:601]
Devision HTC
Molecular type mRNA
Library origin Cell type NA
Tissue type Skin, melanotic melanoma.
Develpmental stage NA
Mini-G
Sequence quality information
CDS feature N-truncated
Kozak sequence NA
PolyA Site: 2094(+) Signal: 2068-2072(+)
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 HIX0224086
Genomic location  G-integra Help Chromosome 17
Location 17q23.2
Position 59322577- 59470192
Strand +
Possible duplicated location(s) NA
Gene structure 4 exon(s)
Database links RefSeq NA
Ensembl NA
Entrez Gene Entrez Gene ID:54828
KEGG GENES KEGG GENES(54828)
GeneCard NA *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 HIP000004157
Predicted CDS 903..1388;  161[aa];  Orientation:+3; 
Codon Adaptation Index (CAI). 0.821

Gene function information  Gene family PPI viewer Similarity Search Tool TACT
H-Inv ID HIT000094334
H-Inv cluster ID Locus viewHIX0224086
Accession number BC036280.1
CAGE tag ID NA
EST ID NA
Transcript feature  Help NO; 
Coding potential  Help Protein coding; 
Definition Similar to Breast carcinoma-amplified sequence 3 isoform 2.
Similarity category  Help Category: Similar to known protein(Category II).
Similar to known protein (NP_060149)  [Identity/coverage = 92.241%/12.71%] to Homo sapiens protein.
Experimental evidence Protein evidence
PubMed ID NA
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 NA
HGNC aliases NA
HGNC name NA
DDBJ NA
UniProt NA
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 HIP000004157
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:54828
KEGG GENES KEGG GENES(54828)
GeneCard NA *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;  cytosol; 
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.

Gene expression information  H-ANGEL DNAProbeLocator Last modified:27-May-2015
Tissue-specific expression  H-ANGEL NA
Probe
information DNAProbeLocator
AceGene AGhsA260914; 
Affymetrix
GeneChip
HG-Focus NA
HG-U133 220488_s_at; 
HG-U133A 220488_s_at; 
HG-U133A_2 220488_s_at; 
HG-U133B NA
HG-U133_Plus_2 220488_s_at; 
HG-U95 54035_at; 
HG-U95A NA
HG-U95B 54035_at; 
HG-U95C NA
HG-U95D NA
HG-U95E NA
HG-U95Av2 NA
HuEx-1_0 3729679;  3729722;  3729723;  3729724;  3729725;  3729743;  3729744;  3729758;  3729759;  3729760;  3729761; 
HuGeneFL NA
Agilent Human 1A Oligo Microarray:PGID215 A_23_P153068; 
Whole Human Genome Oligo Microarray:PGID247 A_23_P153070;  A_24_P100761; 
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
6 .. 6 C/T rs9907515 + 5'UTR
106 .. 106 G/A rs146918800 + 5'UTR
157 .. 157 G/A rs190331483 + 5'UTR
167 .. 167 A/G rs75216250 + 5'UTR
240 .. 240 T/C rs146964008 + 5'UTR
251 .. 251 A/G rs138454404 + 5'UTR
312 ^ 313 -/C rs34459194 + 5'UTR
353 .. 353 G/A rs141952267 + 5'UTR
387 .. 387 A/T rs116034676 + 5'UTR
398 .. 398 C/G rs61515613 + 5'UTR
449 .. 449 C/G rs73993469 + 5'UTR
457 .. 457 A/G rs181527856 + 5'UTR
474 .. 474 C/G rs9904048 + 5'UTR
482 .. 482 G/A rs186701030 + 5'UTR
496 .. 496 T/C rs59631067 + 5'UTR
562 .. 562 C/T rs116486124 + 5'UTR
675 .. 675 A/C rs189475523 + 5'UTR
706 .. 706 G/A rs111346198 + 5'UTR
857 .. 857 A/G rs139988752 + 5'UTR
1058 ^ 1059 -/CCCCC rs144191443 + CDS
1089 .. 1089 G/A rs201160879 + CDS Nonsynonymous[Val63Met]
1134 .. 1134 C/T rs56286963 + CDS Synonymous[Leu78Leu]
1165 .. 1165 A/G rs79186550 + CDS Nonsynonymous[Glu88Gly]
1214 .. 1214 C/T rs190840639 + CDS Synonymous[Ser104Ser]
1232 .. 1232 C/T rs34510277 + CDS Synonymous[Ser110Ser]
1233 .. 1233 G/A rs202116679 + CDS Nonsynonymous[Gly111Arg]
1245 .. 1245 C/T rs1127351 + CDS AA-STOP[Gln115*]
1296 .. 1296 G/A rs202157302 + CDS Nonsynonymous[Gly132Ser]
1334 .. 1334 G/A rs143232884 + CDS Synonymous[Pro144Pro]
1372 .. 1372 C/G rs200061290 + CDS Nonsynonymous[Pro157Arg]
1373 .. 1373 G/A rs201215333 + CDS Synonymous[Pro157Pro]
1384 .. 1384 C/T rs200314899 + CDS Nonsynonymous[Pro161Leu]
1417 .. 1417 G/A rs199571326 + 3'UTR
1421 .. 1421 C/T rs150891372 + 3'UTR
1491 .. 1491 A/G rs181061175 + 3'UTR
1546 .. 1546 A/G rs185126548 + 3'UTR
1836 .. 1836 A/G rs149653305 + 3'UTR
1878 .. 1878 G/A rs189545337 + 3'UTR
1950 .. 1950 T/G rs114157502 + 3'UTR
1957 .. 1957 C/A rs2286530 - 3'UTR
1978 .. 1978 T/C rs183348336 + 3'UTR
2058 .. 2058 C/T rs144223186 + 3'UTR
2085 .. 2085 T/C rs140042394 + 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
THE1C 1 156 -
MIRc 157 244 +
MIRc 737 836 +
Database links H-GOLDHuman-Gene diversity Of Life-style related Diseases(H-GOLD)
Related H-InvDB links VaryGeneVaryGene;  Repeat mask viewerRepeat Mask Viewer