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: HIT000194211 Accession number: M13231 Created date: 26-Mar-2013 Last modified: 27-May-2015
Definition: T-cell receptor gamma-2 chain C region; T-cell receptor gamma chain C region PT-gamma-1/2;
 
 

Transcript original information
Accession number M13231.1
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 ;
Sequence data provider NA
Annotation project NA
Length of cDNA 1421[bp] (No. of exon:7)[A:419 T:385 G:292 C:325]
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) NA
Transcript quality feature NA
Notes NA

Gene structure information  G-integra H-DBAS cDNA-genome alignment
H-Inv cluster ID HIX0006611
Genomic location  G-integra Help Chromosome 7
Location 7p14.1
Position 38279183- 38398583
Strand -
Possible duplicated location(s) NA
Gene structure 7 exon(s)
Database links RefSeq NA
Ensembl NA
Entrez Gene Entrez Gene ID:6967
KEGG GENES KEGG GENES(6967)
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 HIP000064660
Predicted CDS 320..979;  219[aa];  Orientation:+2; 
Codon Adaptation Index (CAI). 0.757

Motif information
ORF

length(219),orf(320:979)
MILGSITVPPGTGKNYYKKLFGSGTTLVVTDKQLDADVSPKPTIFLPSIA
ETKLQKAGTYLCLLEKFFPDIIKIHWQEKKSNTILGSQEGNTMKTNDTYM
KFSWLTVPEESLDKEHRCIVRHENNKNGIDQEIIFPPIKTDVTTVDPKDS
YSKDANDVITMDPKDNWSKDANDTLLLQLTNTSAYYMYLLLLLKSVVYFA
IITCCLLGRTAFCCNGEKS*
a.a.
length
InterPro Name
length(108), motif(37:144) 108 IPR013783 Immunoglobulin-like fold [Domain]
length(95), motif(40:134) 95 IPR007110 Immunoglobulin-like domain [Domain]
length(74), motif(53:126) 74 IPR003597 Immunoglobulin C1-set [Domain]
length(72), motif(57:128) 72 IPR003597 Immunoglobulin C1-set [Domain]

Gene function information  Gene family PPI viewer Similarity Search Tool TACT
H-Inv ID HIT000194211
H-Inv cluster ID Locus viewHIX0006611
Accession number M13231.1
CAGE tag ID NA
EST ID NA
Transcript feature  Help Representative H-Inv IDRepresentative transcript; 
Coding potential  Help Protein coding; 
Definition T-cell receptor gamma-2 chain C region; T-cell receptor gamma chain C region PT-gamma-1/2;
Similarity category  Help Category: Identical to known human protein(Category I).
Identical to known human protein (P03986)  [Identity/coverage = 100.0%/100.0%] to Homo sapiens (Human). protein.
Experimental evidence Protein evidence
PubMed ID 2879283345822111459064ALL
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 TRGC2
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 HIP000064660
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:6967
KEGG GENES KEGG GENES(6967)
GeneCard NA *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

Gene ontology information
Molecular function protein binding (GO:0005515); 

Subcellular localization information  Last modified:27-May-2015
WoLF PSORT cytosol;  peroxisome; 
Target P Other
SOSUI membrane protein
TMHMM membrane 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
32 138 1hxmB2 8e-07 96.3 107/107 b.1.1.2
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 NA
Affymetrix
GeneChip
HG-Focus NA
HG-U133 209813_x_at;  211144_x_at;  215806_x_at;  216920_s_at;  217374_x_at; 
HG-U133A 209813_x_at;  211144_x_at;  215806_x_at;  216920_s_at;  217374_x_at; 
HG-U133A_2 209813_x_at;  211144_x_at;  215806_x_at;  216920_s_at;  217374_x_at; 
HG-U133B NA
HG-U133_Plus_2 209813_x_at;  211144_x_at;  215806_x_at;  216920_s_at;  217374_x_at; 
HG-U95 41468_at;  72420_at; 
HG-U95A 41468_at; 
HG-U95B NA
HG-U95C NA
HG-U95D NA
HG-U95E 72420_at; 
HG-U95Av2 NA
HuEx-1_0 2997992;  3046521;  3046522;  3046524;  3046529;  3046530;  3046531;  3046559;  3046560;  3046562;  3046563;  3046564;  3046565;  3046690;  3046712;  3046713; 
HuGeneFL M30894_at; 
Agilent Human 1A Oligo Microarray:PGID215 A_23_P59543; 
Whole Human Genome Oligo Microarray:PGID247 A_23_P59543; 
Related H-InvDB links H-ANGELH-ANGEL DNAProbeLocatorDNAProbeLocator

Evolutionary information  Evola Help Last modified:27-May-2015
Relationship Species Accession number MGI Links
Orthology Bos sp. (Cow) BC149590 G-integraG-integra
Orthology Bos sp. (Cow) BC149699 G-integraG-integra
Orthology Monodelphis sp. (Opossum) DQ499632 G-integraG-integra
Orthology Bos sp. (Cow) ENSBTAT00000036195 G-integraG-integra
Orthology Gallus sp. (Chicken) ENSGALT00000020055 G-integraG-integra
Orthology Pongo sp. (Orangutan) ENSPPYT00000020534 G-integraG-integra
Orthology Pan sp. (Chimpanzee) ENSPTRT00000035284 G-integraG-integra
Orthology Rattus sp. (Rat) ENSRNOT00000046953 G-integraG-integra
Orthology Mus sp. (Mouse) X04699 G-integraG-integra
Orthology Macaca sp. (Macaque) XM_001100492 G-integraG-integra
Orthology Mus sp. (Mouse) XM_001474746 G-integraG-integra
Orthology Canis sp. (Dog) XM_846584 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
19 .. 19 C/G rs2020451 + 5'UTR
20 .. 20 T/C rs1810377 + 5'UTR
76 .. 76 A/G rs192776147 - 5'UTR
77 .. 77 G/A rs144180986 - 5'UTR
80 .. 80 C/A rs201329302 - 5'UTR
93 .. 93 C/G rs2392560 - 5'UTR
98 .. 98 A/C rs139625253 - 5'UTR
103 .. 103 G/A rs3999873 - 5'UTR
105 .. 105 G/C rs144731993 - 5'UTR
126 .. 126 C/T rs2392559 - 5'UTR
129 .. 129 T/C rs2893556 - 5'UTR
140 .. 140 C/T rs2392558 - 5'UTR
145 .. 145 A/G rs3999872 - 5'UTR
201 .. 201 G/C rs149521319 - 5'UTR
218 .. 218 C/A rs2392557 - 5'UTR
219 .. 219 T/C rs72496142 - 5'UTR
220 .. 220 G/T/A rs3999871 - 5'UTR
224 .. 224 G/A rs2392556 - 5'UTR
264 .. 264 T/C rs139140199 - 5'UTR
278 .. 278 G/A rs188181843 - 5'UTR
295 .. 295 T/C rs114432018 - 5'UTR
296 .. 296 T/C rs200774960 - 5'UTR
299 .. 299 G/T rs2392555 - 5'UTR
303 .. 303 G/A rs3999870 - 5'UTR
305 .. 305 A/G rs2392554 - 5'UTR
324 .. 324 T/C rs200144179 - CDS Nonsynonymous[Ile2Thr]
335 .. 335 A/C rs150804886 - CDS Nonsynonymous[Ile6Leu]
369 .. 369 A/G rs183060583 - CDS Nonsynonymous[Tyr17Cys]
400 .. 400 T/G rs199756530 - CDS Synonymous[Leu27Leu]
463 .. 463 A/G rs1053756 + CDS Synonymous[Ser48Ser]
478 .. 478 A/G rs1053757 + CDS Synonymous[Lys53Lys]
478 .. 478 A/G rs71546638 - CDS Synonymous[Lys53Lys]
499 .. 499 C/T rs147430032 - CDS Synonymous[Tyr60Tyr]
516 .. 516 A/C rs186898919 - CDS Nonsynonymous[Lys66Thr]
526 .. 526 A/T rs1053758 + CDS Synonymous[Pro69Pro]
530 .. 530 A/G rs1053759 + CDS Nonsynonymous[Ile71Val]
607 .. 607 C/T rs182225167 - CDS Synonymous[Asn96Asn]
607 .. 607 C/T rs77580342 - CDS Synonymous[Asn96Asn]
647 .. 647 G/A rs78920808 - CDS Nonsynonymous[Glu110Lys]
700 .. 700 C/T rs142126157 - CDS Synonymous[Asn127Asn]
704 .. 704 A/G rs1053761 + CDS Nonsynonymous[Ile129Val]
705 .. 705 T/C rs189460568 - CDS Nonsynonymous[Ile129Thr]
764 .. 764 G/T rs4434531 - CDS Nonsynonymous[Asp149Tyr]
768 .. 768 G/A rs4629747 - CDS Nonsynonymous[Ser150Asn]
778 .. 778 A/G rs2008893 + CDS Synonymous[Lys153Lys]
812 .. 812 G/T rs207467790 - CDS Nonsynonymous[Asp165Tyr]
819 .. 819 G/A rs199771012 - CDS AA-STOP[Trp167*]
820 .. 820 G/T rs1132993 + CDS Nonsynonymous[Trp167Cys]
834 .. 834 A/T rs2736942 + CDS Nonsynonymous[Asn172Ile]
861 ^ 862 -/A rs35804577 - CDS
867 .. 867 C/T rs187511270 - CDS Nonsynonymous[Ser183Phe]
879 .. 879 T/C rs1053763 + CDS Nonsynonymous[Met187Thr]
879 .. 879 T/C rs118026939 - CDS Nonsynonymous[Met187Thr]
941 .. 941 G/A rs1053771 + CDS Nonsynonymous[Gly208Arg]
941 .. 941 G/A rs145153957 - CDS Nonsynonymous[Gly208Arg]
1089 .. 1089 C/T rs1053793 + 3'UTR
1089 .. 1089 C/T rs202021208 - 3'UTR
1121 .. 1121 T/C rs1053794 + 3'UTR
1156 .. 1156 G/C rs151249047 - 3'UTR
1156 .. 1156 G/C rs59016520 - 3'UTR
1183 .. 1183 T/C rs1053806 + 3'UTR
1264 .. 1264 G/T rs1053821 + 3'UTR
1264 .. 1264 G/T rs71248653 - 3'UTR
1269 .. 1269 C/T rs182739922 - 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