H-InvDB x AHG DB
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H-InvDB_9.0 released on May 27, 2015.
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H-Invitational ID: HIT000099427 Accession number: BC051818 Created date: 26-Mar-2013 Last modified: 27-May-2015
Definition: Similar to Mitochondrial Rho GTPase 1 isoform 1.
 
 

Transcript original information
Accession number BC051818.1
CAGE tag ID NA
EST ID NA
Clone Number IMAGE:6009328
Experimental resources NBRC: NITE Biological Resource Center  NBRC ; HGPD: Human Gene and Protein Database HGPD ; Antibody: searching human antibodies at "BIO-kaimono.com" Antibody (RHOT1) ; Catalog: searching experimental product catalogs at "BIO-kaimono.com" Catalog (RHOT1);
Sequence data provider NA
Annotation project NA
Length of cDNA 2911[bp] (No. of exon:19)[A:937 T:880 G:562 C:532]
Devision HUM
Molecular type mRNA
Library origin Cell type NA
Tissue type Lung, large cell carcinoma
Develpmental stage NA
Mini-G
Sequence quality information
CDS feature Complete CDS
Kozak sequence NA
PolyA Site: 2897(+) Signal: 2877-2881(+)
Vector/adapter sequence NA
Frame shift NA
Remaining intron NA
Splice site acceptor (NAGNAG) TAGAAG; 
Transcript quality feature Truncation; 
Notes NA

Gene structure information  G-integra H-DBAS cDNA-genome alignment
H-Inv cluster ID HIX0013701
Genomic location  G-integra Help Chromosome 17
Location 17q11.2
Position 30498075- 30552746
Strand +
Possible duplicated location(s) NA
Gene structure 19 exon(s)
Database links RefSeq NA
Ensembl NA
Entrez Gene Entrez Gene ID:55288
KEGG GENES KEGG GENES(55288)
GeneCard GeneCardRHOT1*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 HIP000224413
Predicted CDS 14..1903;  629[aa];  Orientation:+2; 
Codon Adaptation Index (CAI). 0.7

Motif information
ORF

length(629),orf(14:1903)
MSLVSEEFPEEVPPRAEEITIPADVTPERVPTHIVDYSEAEQSDEQLHQE
ISQANVICIVYAVNNKHSIDKVTSRWIPLINERTDKDSRLPLILVGNKSD
LVEYSSMETILPIMNQYTEIETCVECSAKNLKNISELFYYAQKAVLHPTG
PLYCPEEKEMKPACIKALTRIFKISDQDNDGTLNDAELNFFQRICFNTPL
APQALEDVKNVVRKHISDGVADSGLTLKGFLFLHTLFIQRGRHETTWTVL
RRFGYDDDLDLTPEYLFPLLKIPPDCTTELNHHAYLFLQSTFDKHDLDRD
CALSPDELKDLFKVFPYIPWGPDVNNTVCTNERGWITYQGFLSQWTLTTY
LDVQRCLEYLGYLGYSILTEQESQASAVTVTRDKKIDLQKKQTQRNVFRC
NVIGVKNCGKSGVLQALLGRNLMRQKKIREDHKSYYAINTVYVYGQEKYL
LLHDISESEFLTEAEIICDVVCLVYDVSNPKSFEYCARIFKQHFMDSRIP
CLIVAAKSDLHEVKQEYSISPTDFCRKHKMPPPQAFTCNTADAPSKDIFV
KLTTMAMYPEDHYRDRLSRDMGHTDRIENLRKIWVFLKTALHVTQADLKS
STFWLRASFGATVFAVLGFAMYKALLKQR*
a.a.
length
InterPro Name
length(156), motif(1:156) 156 IPR020860 MIRO [Domain]
length(148), motif(2:149) 148 IPR027417 P-loop containing nucleoside triphosphate hydrolase [Domain]
length(179), motif(3:181) 179 IPR027417 P-loop containing nucleoside triphosphate hydrolase [Domain]
length(141), motif(5:145) 141 IPR001806 Small GTPase superfamily [Family]
length(14), motif(88:101) 14 IPR001806 Small GTPase superfamily [Family]
length(23), motif(123:145) 23 IPR001806 Small GTPase superfamily [Family]
length(90), motif(156:245) 90 IPR011992 EF-hand domain pair [Domain]
length(36), motif(163:198) 36 IPR002048 EF-hand domain [Domain]
length(29), motif(167:195) 29 IPR002048 EF-hand domain [Domain]
length(13), motif(176:188) 13 IPR018247 EF-Hand 1, calcium-binding site [Binding_site]
length(89), motif(197:285) 89 IPR013567 EF hand associated, type-2 [Domain]
length(36), motif(283:318) 36 IPR002048 EF-hand domain [Domain]
length(57), motif(287:343) 57 IPR011992 EF-hand domain pair [Domain]
length(29), motif(287:315) 29 IPR002048 EF-hand domain [Domain]
length(26), motif(288:313) 26 IPR002048 EF-hand domain [Domain]
length(75), motif(319:393) 75 IPR013566 EF hand associated, type-1 [Domain]
length(150), motif(391:540) 150 IPR020860 MIRO [Domain]
length(167), motif(394:560) 167 IPR027417 P-loop containing nucleoside triphosphate hydrolase [Domain]
length(162), motif(398:559) 162 IPR027417 P-loop containing nucleoside triphosphate hydrolase [Domain]
length(111), motif(399:509) 111 IPR013684 Mitochondrial Rho-like [Domain]

Gene function information  Gene family PPI viewer Similarity Search Tool TACT
H-Inv ID HIT000099427
H-Inv cluster ID Locus viewHIX0013701
Accession number BC051818.1
CAGE tag ID NA
EST ID NA
Transcript feature  Help NO; 
Coding potential  Help Protein coding; 
Definition Similar to Mitochondrial Rho GTPase 1 isoform 1.
Similarity category  Help Category: Similar to known protein(Category II).
Similar to known protein (NP_001028740)  [Identity/coverage = 99.842%/97.54%] 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 RHOT1
HGNC aliases "ras homolog gene family, member T1"
HGNC name ras homolog family member T1
DDBJ RHOT1
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 HIP000224413
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:55288
KEGG GENES KEGG GENES(55288)
GeneCard GeneCardRHOT1*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

Gene ontology information
Molecular function GTP binding (GO:0005525);  calcium ion binding (GO:0005509); 
Biological process small GTPase mediated signal transduction (GO:0007264); 
Cellular component intracellular (GO:0005622); 

Subcellular localization information  Last modified:27-May-2015
WoLF PSORT cytosol;  nuclear; 
Target P Other
SOSUI soluble 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
1 150 1e6vB1 1e-16 15.1 139/253 a.89.1.1
156 313 1xo5A 1e-13 17.5 154/174 a.39.1.5
288 346 1wlzA1 2e-05 20.3 59/83 a.39.1.7
398 531 1a2kC 1e-06 11.9 126/196 c.37.1.8
523 622 1ndbA2 4e-09 17.6 85/220 c.43.1.3
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 AGhsA150404;  AGhsB240808; 
Affymetrix
GeneChip
HG-Focus NA
HG-U133 218323_at;  222148_s_at; 
HG-U133A 218323_at;  222148_s_at; 
HG-U133A_2 218323_at;  222148_s_at; 
HG-U133B NA
HG-U133_Plus_2 218323_at;  222148_s_at; 
HG-U95 50998_at;  91428_at; 
HG-U95A NA
HG-U95B 50998_at; 
HG-U95C NA
HG-U95D NA
HG-U95E 91428_at; 
HG-U95Av2 NA
HuEx-1_0 3503427;  3503428;  3503429;  3717545;  3717548;  3717549;  3717550;  3717551;  3717555;  3717556;  3717558;  3717559;  3717560;  3717561;  3717562;  3717563;  3717564;  3717566;  3717567;  3717568;  3717570;  3717572;  3717576;  3717578;  3717588;  3717589;  3717590;  3717591;  3717592;  3752587;  3780496;  3925286;  3925287;  3925288; 
HuGeneFL NA
Agilent Human 1A Oligo Microarray:PGID215 A_23_P89492; 
Whole Human Genome Oligo Microarray:PGID247 A_24_P59765; 
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
101 .. 101 G/A rs145143892 + CDS Nonsynonymous[Val30Ile]
142 .. 142 T/A rs199735465 + CDS Nonsynonymous[Ser43Arg]
316 .. 316 G/T rs201893717 + CDS Synonymous[Leu101Leu]
363 .. 363 A/G rs116363165 + CDS Nonsynonymous[Tyr117Cys]
424 .. 424 C/T rs147576979 + CDS Synonymous[Leu137Leu]
433 .. 433 C/T rs201021051 + CDS Synonymous[Tyr140Tyr]
580 .. 580 C/T rs141985401 + CDS Synonymous[Asn189Asn]
640 .. 640 G/A rs145734789 + CDS Synonymous[Lys209Lys]
716 .. 716 A/T rs28630420 + CDS Nonsynonymous[Thr235Ser]
768 .. 768 G/A rs116192944 + CDS Nonsynonymous[Arg252Gln]
787 .. 787 C/T rs149000823 + CDS Synonymous[Asp258Asp]
814 .. 814 C/- rs111248500 + CDS
901 .. 901 T/C rs115949021 + CDS Synonymous[Asp296Asp]
996 ^ 997 -/T rs34538349 + CDS
1075 .. 1075 G/A rs114899192 + CDS Synonymous[Gln354Gln]
1132 .. 1132 T/G rs57831260 + CDS Synonymous[Ser373Ser]
1134 .. 1134 A/G rs141923086 + CDS Nonsynonymous[Gln374Arg]
1153 .. 1153 G/T rs201011889 + CDS Synonymous[Val380Val]
1185 .. 1185 A/C rs199972893 + CDS Nonsynonymous[Lys391Thr]
1408 .. 1408 A/G rs16967164 + CDS Synonymous[Glu465Glu]
1422 .. 1422 T/C rs138851743 + CDS Nonsynonymous[Val470Ala]
1441 .. 1441 T/C rs191457576 + CDS Synonymous[Asp476Asp]
1461 .. 1461 T/C rs80181477 + CDS Nonsynonymous[Phe483Ser]
1495 .. 1495 T/A rs141986224 + CDS Nonsynonymous[Phe494Leu]
1542 .. 1542 T/G rs146295337 + CDS Nonsynonymous[Leu510Arg]
1565 .. 1565 A/G rs139664057 + CDS Nonsynonymous[Ser518Gly]
1629 .. 1629 A/G rs149321179 + CDS Nonsynonymous[Asn539Ser]
1641 .. 1641 C/G rs199545262 + CDS Nonsynonymous[Ala543Gly]
1712 .. 1712 C/T rs144578639 + CDS Nonsynonymous[Leu567Phe]
1755 .. 1755 G/T rs148455732 + CDS Nonsynonymous[Arg581Ile]
1759 .. 1759 A/G rs201844588 + CDS Synonymous[Lys582Lys]
1789 .. 1789 C/T rs114672765 + CDS Synonymous[His592His]
1818 .. 1818 C/T rs147592052 + CDS Nonsynonymous[Thr602Met]
1830 .. 1830 G/A rs140387858 + CDS Nonsynonymous[Arg606Gln]
1858 .. 1858 A/G rs58010811 + CDS Synonymous[Ala615Ala]
2137 .. 2137 G/T rs114795322 + 3'UTR
2168 .. 2168 G/A rs7207471 + 3'UTR
2247 .. 2247 G/C rs149609981 + 3'UTR
2397 .. 2397 G/A rs190500838 + 3'UTR
2462 .. 2462 C/T rs180926692 + 3'UTR
2463 .. 2463 G/A rs147312326 + 3'UTR
2603 ^ 2604 -/A rs143886333 + 3'UTR
2680 .. 2680 C/T rs185000418 + 3'UTR
2683 .. 2683 A/T rs139249661 + 3'UTR
2761 .. 2761 C/T rs16967203 + 3'UTR
2897 .. 2897 A/T rs80273262 + 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