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: HIT000321050 Accession number: X04588 Created date: 26-Mar-2013 Last modified: 20-Apr-2012
Definition: Tropomyosin alpha-3 chain isoform 2.
 
 

Transcript original information
Accession number X04588.1
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 (TPM3) ; Catalog: searching experimental product catalogs at "BIO-kaimono.com" Catalog (TPM3);
Sequence data provider NA
Annotation project NA
Length of cDNA 2077[bp] (No. of exon:8)[A:576 T:533 G:511 C:457]
Devision HUM
Molecular type mRNA
Library origin Cell type fibroblast
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) NA
Transcript quality feature NA
Notes NA

Gene structure information  G-integra H-DBAS cDNA-genome alignment
H-Inv cluster ID HIX0001100
Genomic location  G-integra Help Chromosome 1
Location 1q21.3
Position 154128835- 154155648
Strand -
Possible duplicated location(s) NA
Gene structure 8 exon(s)
Database links RefSeq NM_152263;  NM_153649;  NM_001043351;  NM_001043352;  NM_001043353; 
Ensembl ENST00000271850;  ENST00000302206;  ENST00000312970;  ENST00000323144;  ENST00000328159;  ENST00000330188;  ENST00000341372;  ENST00000341485;  ENST00000368527;  ENST00000368530;  ENST00000368531;  ENST00000368533;  ENST00000368545;  ENST00000466010;  ENST00000469717;  ENST00000473036;  ENST00000501658;  ENST00000504663;  ENST00000505010;  ENST00000509409;  ENST00000509601;  ENST00000513769;  ENST00000515609;  ENST00000540332; 
Entrez Gene Entrez Gene ID:7170; 
KEGG GENES KEGG GENES(7170); 
GeneCard GeneCardTPM3;  *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 HIP000027430
Predicted CDS 53..799;  248[aa];  Orientation:+2; 
Codon Adaptation Index (CAI). 0.781
Database links RefSeq NP_705935; 
UniProt E2RB38;  Q6QA25; 
CCDS CCDS1060; 

Motif information
ORF

length(248),orf(53:799) MAGITTIEAVKRKIQVLQQQADDAEERAERLQREVEGERRAREQAEAEVA SLNRRIQLVEEELDRAQERLATALQKLEEAEKAADESERGMKVIENRALK DEEKMELQEIQLKEAKHIAEEADRKYEEVARKLVIIEGDLERTEERAELA ESRCREMDEQIRLMDQNLKCLSAAEEKYSQKEDKYEEEIKILTDKLKEAE TRAEFAERSVAKLEKTIDDLEDKLKCTKEEHLCTQRMLDQTLLDLNEM* 		a.a.
length		 InterPro Name
length(237), motif(12:248) 237 IPR000533 Tropomyosin [Family]
length(18), motif(48:65) 18 IPR000533 Tropomyosin [Family]
length(21), motif(84:104) 21 IPR000533 Tropomyosin [Family]
length(29), motif(109:137) 29 IPR000533 Tropomyosin [Family]
length(24), motif(139:162) 24 IPR000533 Tropomyosin [Family]
length(26), motif(195:220) 26 IPR000533 Tropomyosin [Family]
length(9), motif(196:204) 9 IPR000533 Tropomyosin [Family]

Gene function information  Gene family PPI viewer Similarity Search Tool TACT
H-Inv ID HIT000321050
H-Inv cluster ID Locus viewHIX0001100
Accession number X04588.1
CAGE tag ID NA
EST ID NA
Transcript feature  Help NO; 
Coding potential  Help Protein coding; 
Definition Tropomyosin alpha-3 chain isoform 2.
Similarity category  Help Category: Identical to known human protein(Category I).
Identical to known human protein (NP_705935)  [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 HIF0000329
Gene family/group name Putative Tropomyosin (IPR000533).
Evidence motif (InterPro) ID IPR000533
Gene symbol/name HGNC symbol TPM3
HGNC aliases NA
HGNC name tropomyosin 3
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 HIP000027430
No. of interaction 6
Interaction partner(s) HIP000030029;  HIP000030029;  HIP000045286;  HIP000045286;  HIP000046467;  HIP000077378; 
BIND NA
DIP 111963E;  116363E; 
MINT MINT-2863095; 
HPRD 00194;  05059;  07389;  11809; 
IntAct EBI-1085888;  EBI-3915193;  EBI-735775;  EBI-955190; 
Database links RefSeq NM_152263;  NM_153649;  NM_001043351;  NM_001043352;  NM_001043353; 
Ensembl ENST00000271850;  ENST00000302206;  ENST00000312970;  ENST00000323144;  ENST00000328159;  ENST00000330188;  ENST00000341372;  ENST00000341485;  ENST00000368527;  ENST00000368530;  ENST00000368531;  ENST00000368533;  ENST00000368545;  ENST00000466010;  ENST00000469717;  ENST00000473036;  ENST00000501658;  ENST00000504663;  ENST00000505010;  ENST00000509409;  ENST00000509601;  ENST00000513769;  ENST00000515609;  ENST00000540332; 
Entrez Gene Entrez Gene ID:7170; 
KEGG GENES KEGG GENES(7170); 
GeneCard GeneCardTPM3;  *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 Putative Tropomyosin (IPR000533). 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:20-Apr-2012
WoLF PSORT cytosol;  nuclear;  mitochondria; 
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:20-Apr-2012
Tissue-specific expression  H-ANGEL NA
Probe
information DNAProbeLocator		 AceGene NA
Affymetrix
GeneChip		 HG-Focus NA
HG-U133 222976_s_at; 
HG-U133A NA
HG-U133A_2 NA
HG-U133B 222976_s_at; 
HG-U133_Plus_2 1567105_at;  222976_s_at; 
HG-U95 57840_at;  75021_at; 
HG-U95A NA
HG-U95B NA
HG-U95C 57840_at; 
HG-U95D 75021_at; 
HG-U95E NA
HG-U95Av2 NA
HuEx-1_0 2360056;  2360057;  2360058;  2360059;  2436527;  2436540;  2436541;  2436548;  2436550;  2436553;  2436557;  2531488;  2603184;  2603186;  2603188;  3042721;  3069271;  3069273;  3588678;  3588680;  3588684;  3660732;  3660762;  3660764;  3660770;  3660772;  3660774;  3834246;  3834250;  3863132; 
HuGeneFL NA
Agilent Human 1A Oligo Microarray:PGID215 A_23_P201250; 
Whole Human Genome Oligo Microarray:PGID247 A_23_P310222;  A_24_P393880;  A_24_P67364;  A_32_P162338;  A_32_P186889; 
Related H-InvDB links H-ANGELH-ANGEL;  DNAProbeLocatorDNAProbeLocator; 

Disease/pathology information  DiseaseInfo Viewer LEGENDA Last modified:20-Apr-2012
Disease relation Disease name: Nemaline myopathy 1, autosomal dominant (161800); 
Related information in OMIM OMIM ID:  191030;  Title: TROPOMYOSIN 3
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 MutationView:  191030; 
JRE-1.4.0 or later is required.Download JRE at Sun's web site.
Literature-Extracted GENe-Disease Associations (LEGENDA) LEGENDA Gene name Entrez Gene ID:(7170)
Disease Entrez Gene ID:(7170)
Substance Entrez Gene ID:(7170)
Related H-InvDB links DiseaseInfo ViewerDiseaseInfo Viewer;  LEGENDALEGENDA; 

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
168 .. 168 G/A rs115672744 - CDS Nonsynonymous[Arg39Lys]
239 .. 239 C/A rs121964853 + CDS Nonsynonymous[Leu63Met]
294 .. 294 A/- rs35013279 - CDS
443 .. 443 C/G/T rs121964854 + CDS
444 .. 444 G/A rs121964852 + CDS Nonsynonymous[Arg131His]
515 .. 515 C/T rs11540125 + CDS AA-STOP[Arg155*]
553 .. 553 C/T rs114065129 - CDS Synonymous[Asn167Asn]
637 .. 637 A/T rs1051209 + CDS Nonsynonymous[Lys195Asn]
657 .. 657 G/A rs1051212 + CDS Nonsynonymous[Arg202His]
667 .. 667 T/G rs1051215 + CDS Nonsynonymous[Phe205Leu]
775 .. 775 C/T rs1051220 + CDS Synonymous[Thr241Thr]
830 .. 830 C/T rs1051226 + 3'UTR
841 .. 841 A/T rs1051228 + 3'UTR
865 .. 865 G/C rs1051229 + 3'UTR
866 .. 866 G/C rs1051230 + 3'UTR
881 .. 881 A/C rs1131570 + 3'UTR
897 .. 897 T/C rs1131571 + 3'UTR
900 .. 900 C/T rs1131572 + 3'UTR
920 .. 920 T/C rs1131573 + 3'UTR
936 .. 936 T/C rs1131574 + 3'UTR
942 .. 942 T/C rs1131575 + 3'UTR
943 .. 943 G/C rs1131576 + 3'UTR
952 .. 952 G/A rs1131577 + 3'UTR
975 .. 975 C/T rs1131578 + 3'UTR
1055 .. 1055 A/- rs34823516 - 3'UTR
1282 .. 1282 C/A rs7654 + 3'UTR
1296 ^ 1297 -/C rs34748719 - 3'UTR
1454 .. 1454 A/T rs11540113 + 3'UTR
1545 .. 1545 T/C rs112161353 - 3'UTR
1586 .. 1586 G/A rs11540109 + 3'UTR
1646 .. 1646 C/T rs1051370 + 3'UTR
1862 ^ 1863 -/A rs60806510 - 3'UTR
1870 .. 1870 C/T rs55840215 - 3'UTR
1880 .. 1880 C/T rs59151413 - 3'UTR
1912 .. 1912 G/T rs11577138 - 3'UTR
2071 .. 2071 A/C rs113769820 - 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;