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H-Invitational ID: HIT000015863 Accession number: AK090996 Created date: 26-Mar-2013 Last modified: 26-Mar-2013
Definition: Thy-1 membrane glycoprotein preproprotein.
 
 

Transcript original information
Accession number AK090996.1
CAGE tag ID NA
EST ID NA
Clone Number BRAWH2002125
Experimental resources NBRC: NITE Biological Resource Center  NBRC ; HGPD: Human Gene and Protein Database HGPD ; Antibody: searching human antibodies at "BIO-kaimono.com" Antibody (THY1) ; Catalog: searching experimental product catalogs at "BIO-kaimono.com" Catalog (THY1);
Sequence data provider Project:FLJ; Provider:FLJ/HRI; 
Annotation project H-Invitational FLcDNA
Length of cDNA 2757[bp] (No. of exon:4)[A:619 T:532 G:750 C:856]
Devision HUM
Molecular type mRNA
Library origin Cell type NA
Tissue type brain
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) NA
Transcript quality feature NA
Notes NA

Gene structure information  G-integra H-DBAS cDNA-genome alignment
H-Inv cluster ID HIX0010195
Genomic location  G-integra Help Chromosome 11
Location 11q23.3
Position 119288887- 119294838
Strand -
Possible duplicated location(s) NA
Gene structure 4 exon(s)
Database links RefSeq NM_006288
Ensembl ENST00000284240ENST00000524659ENST00000524970ENST00000527590ENST00000528295ENST00000528522ENST00000532974ENST00000533840
Entrez Gene Entrez Gene ID:7070
KEGG GENES KEGG GENES(7070)
GeneCard GeneCardTHY1*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 HIP000080514
Predicted CDS 1041..1526;  161[aa];  Orientation:+3; 
Codon Adaptation Index (CAI). 0.798
Database links RefSeq NP_006279
UniProt B0YJA4P04216
CCDS CCDS8424

Motif information
ORF

length(161),orf(1041:1526)
MNLAISIALLLTVLQVSRGQKVTSLTACLVDQSLRLDCRHENTSSSPIQY
EFSLTRETKKHVLFGTVGVPEHTYRSRTNFTSKYNMKVLYLSAFTSKDEG
TYTCALHHSGHSPPISSQNVTVLRDKLVKCEGISLLAQNTSWLLLLLLSL
SLLQATDFMSL*
a.a.
length
InterPro Name
length(117), motif(5:121) 117 IPR007110 Immunoglobulin-like [Domain]
length(94), motif(30:123) 94 IPR013783 Immunoglobulin-like fold [Domain]
length(73), motif(32:104) 73 IPR013151 Immunoglobulin [Domain]
length(74), motif(33:106) 74 IPR003596 Immunoglobulin V-set, subgroup [Domain]

Gene function information  Gene family PPI viewer Similarity Search Tool TACT
H-Inv ID HIT000015863
H-Inv cluster ID Locus viewHIX0010195
Accession number AK090996.1
CAGE tag ID NA
EST ID NA
Transcript feature  Help Representative H-Inv IDRepresentative transcript;  Splicing isoformSplicing isoform
Coding potential  Help Protein coding; 
Definition Thy-1 membrane glycoprotein preproprotein.
Similarity category  Help Category: Identical to known human protein(Category I).
Identical to known human protein (NP_006279)  [Identity/coverage = 100.0%/100.0%] 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 THY1
HGNC aliases NA
HGNC name Thy-1 cell surface antigen
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 HIP000080514
No. of interaction 6
Interaction partner(s) HIP000029955HIP000055075HIP000055239HIP000080514HIP000090938HIP000256298
BIND NA
DIP NA
MINT NA
HPRD 00411;  00655;  01080;  01428;  01769;  01903; 
IntAct NA
Database links RefSeq NM_006288
Ensembl ENST00000284240ENST00000524659ENST00000524970ENST00000527590ENST00000528295ENST00000528522ENST00000532974ENST00000533840
Entrez Gene Entrez Gene ID:7070
KEGG GENES KEGG GENES(7070)
GeneCard GeneCardTHY1*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 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:26-Mar-2013
WoLF PSORT extracellular; 
Target P signal peptide
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:26-Mar-2013
Start End PDB_ID E-value Identity Coverage SCOP_ID
32 122 1dr9A1 4e-05 16.5 91/105 b.1.1.1
Related H-InvDB links GTOP GTOP

Gene expression information  H-ANGEL DNAProbeLocator Last modified:26-Mar-2013
Tissue-specific expression  H-ANGEL NA
Probe
information DNAProbeLocator
AceGene AGhsA020421;  AGhsC021111; 
Affymetrix
GeneChip
HG-Focus 208850_s_at; 
HG-U133 208850_s_at;  208851_s_at;  213869_x_at; 
HG-U133A 208850_s_at;  208851_s_at;  213869_x_at; 
HG-U133A_2 208850_s_at;  208851_s_at;  213869_x_at; 
HG-U133B NA
HG-U133_Plus_2 208850_s_at;  208851_s_at;  213869_x_at; 
HG-U95 39395_at; 
HG-U95A 39395_at; 
HG-U95B NA
HG-U95C NA
HG-U95D NA
HG-U95E NA
HG-U95Av2 NA
HuEx-1_0 3352170;  3352171;  3352172;  3352207;  3352208;  3352209;  3394416;  3394417;  3394418;  3394419;  3394420;  3394421;  3394422;  3394423;  3394424;  3394425;  3394430;  3394436; 
HuGeneFL M11749_at; 
Agilent Human 1A Oligo Microarray:PGID215 A_23_P36364;  A_23_P47756; 
Whole Human Genome Oligo Microarray:PGID247 A_23_P36364; 
Related H-InvDB links H-ANGELH-ANGEL DNAProbeLocatorDNAProbeLocator

Disease/pathology information  DiseaseInfo Viewer LEGENDA Last modified:26-Mar-2013
Disease relation Disease name:NA
Related information in OMIM OMIM ID:NA Title:NA
Co-localized orphan diseases OMIM ID:  604499607967609270609470611010
Disease related mutation NA
Literature-Extracted GENe-Disease Associations (LEGENDA) LEGENDA Gene name Entrez Gene ID:(7070)
Disease Entrez Gene ID:(7070)
Substance Entrez Gene ID:(7070)
Related H-InvDB links DiseaseInfo ViewerDiseaseInfo ViewerLEGENDALEGENDA

Evolutionary information  Evola Help Last modified:26-Mar-2013
Relationship Species Accession number MGI Links
Orthology Mus sp. (Mouse) BC054436 MGI:98747 G-integraG-integra
Orthology Bos sp. (Cow) BC104530 G-integraG-integra
Orthology Pongo sp. (Orangutan) CR861077 G-integraG-integra
Orthology Pan sp. (Chimpanzee) ENSPTRT00000008133 G-integraG-integra
Orthology Equus sp. (Horse) EU881920 G-integraG-integra
Orthology Macaca sp. (Macaque) U93310 G-integraG-integra
Orthology Rattus sp. (Rat) X03150 G-integraG-integra
Orthology Monodelphis sp. (Opossum) XM_001380419 G-integraG-integra
Orthology Canis sp. (Dog) XM_546483 G-integraG-integra
Phylogenetic tree [View by ATV]
Neighbor-joining (phb) 
Related H-InvDB links EvolaEvoladN/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
117 .. 117 G/A rs76290184 - 5'UTR
143 .. 143 T/A rs56368892 - 5'UTR
226 .. 226 G/A rs55676289 - 5'UTR
245 .. 245 G/A rs56223348 - 5'UTR
274 .. 274 A/G rs56178844 - 5'UTR
303 .. 303 A/T rs55733730 - 5'UTR
368 .. 368 G/A rs45506295 - 5'UTR
423 .. 423 T/C rs56189868 - 5'UTR
425 .. 425 G/C rs79525057 - 5'UTR
525 .. 525 T/C rs55997940 - 5'UTR
549 .. 549 T/C rs11574653 + 5'UTR
697 .. 697 G/A rs3862600 - 5'UTR
698 .. 698 G/A rs1864290 + 5'UTR
702 .. 702 G/A rs2082050 + 5'UTR
740 .. 740 C/T rs1864291 + 5'UTR
778 .. 778 T/C rs114450123 - 5'UTR
787 .. 787 A/C rs115822613 - 5'UTR
814 .. 814 C/T rs114984848 - 5'UTR
856 .. 856 C/T rs56041994 - 5'UTR
899 .. 899 C/T rs4397862 - 5'UTR
926 .. 926 C/A rs55933700 - 5'UTR
1145 .. 1145 T/A rs11574654 + CDS Synonymous[Arg35Arg]
1253 .. 1253 G/A rs35922941 - CDS Synonymous[Glu71Glu]
1263 .. 1263 C/A rs11546392 + CDS Nonsynonymous[Arg75Ser]
1343 .. 1343 C/G rs11546394 + CDS Synonymous[Thr101Thr]
1348 .. 1348 C/T rs45441500 - CDS Nonsynonymous[Thr103Met]
1391 .. 1391 C/A rs11546391 + CDS Synonymous[Ser117Ser]
1397 .. 1397 C/T rs111763470 - CDS Synonymous[Asn119Asn]
1610 .. 1610 G/C rs1054735 + 3'UTR
1660 .. 1660 G/C rs111339732 - 3'UTR
1725 .. 1725 C/A rs112225059 - 3'UTR
1801 .. 1801 G/A rs12291644 - 3'UTR
1874 .. 1874 G/T rs13770 - 3'UTR
2000 .. 2000 C/G rs114912758 - 3'UTR
2291 .. 2291 G/A rs112627114 - 3'UTR
2392 .. 2392 C/T rs1055370 + 3'UTR
2458 .. 2458 C/T rs1064070 + 3'UTR
2531 .. 2531 C/T rs11546395 - 3'UTR
2569 .. 2569 C/T rs113417916 - 3'UTR
2693 .. 2693 A/C rs1055922 + 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
MIRb 140 200 +
Database links H-GOLDHuman-Gene diversity Of Life-style related Diseases(H-GOLD)
Related H-InvDB links VaryGeneVaryGene;  Repeat mask viewerRepeat Mask Viewer