H-InvDB x AHG DB
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H-Invitational ID: HIT000088695 Accession number: BC015454 Created date: 26-Mar-2013 Last modified: 27-May-2015
Definition: Similar to U3 small nucleolar RNA-associated protein 6 homolog.
 
 

Transcript original information
Accession number BC015454.1
CAGE tag ID NA
EST ID NA
Clone Number IMAGE:4430701
Experimental resources NBRC: NITE Biological Resource Center  NBRC ; HGPD: Human Gene and Protein Database HGPD ; Antibody: searching human antibodies at "BIO-kaimono.com" Antibody (UTP6) ; Catalog: searching experimental product catalogs at "BIO-kaimono.com" Catalog (UTP6);
Sequence data provider NA
Annotation project NA
Length of cDNA 1984[bp] (No. of exon:19)[A:622 T:520 G:500 C:342]
Devision HUM
Molecular type mRNA
Library origin Cell type NA
Tissue type Prostate, adenocarcinoma.
Develpmental stage NA
Mini-G
Sequence quality information
CDS feature Complete CDS
Kozak sequence NA
PolyA Site: 1970(+) Signal: 1947-1951(+)
Vector/adapter sequence NA
Frame shift NA
Remaining intron NA
Splice site acceptor (NAGNAG) GAGTAG;  TAGGAG; 
Transcript quality feature NA
Notes NA

Gene structure information  G-integra H-DBAS cDNA-genome alignment
H-Inv cluster ID HIX0013690
Genomic location  G-integra Help Chromosome 17
Location 17q11.2
Position 30190190- 30228634
Strand -
Possible duplicated location(s) NA
Gene structure 19 exon(s)
Database links RefSeq NA
Ensembl NA
Entrez Gene Entrez Gene ID:55813
KEGG GENES KEGG GENES(55813)
GeneCard GeneCardUTP6*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 HIP000070952
Predicted CDS 385..1782;  465[aa];  Orientation:+1; 
Codon Adaptation Index (CAI). 0.74

Motif information
ORF

length(465),orf(385:1782)
MLAIHSNKPALWIMAAKWEMEDRLSSESARQLFLRALRFHPECPKLYKEY
FRMELMHAEKLRKEKEEFEKASMDVENPDYSEEILKGELAWIIYKNSVSI
IKGAEFHVSLLSIAQLFDFAKDLQKEIYDDLQALHTDDPLTWDYVARREL
EIESQTEEQPTTKQAKAVEVGRKEERCCAVYEEAVKTLPTEAMWKCYITF
CLERFTKKSNSGFLRGKRLERTMTVFRKAHELKLLSECQYKQLSVSLLCY
NFLREALEVAVAGTELFRDSGTMWQLKLQVLIESKSPDIAMLFEEAFVHL
KPQVCLPLWISWAEWSEGAKSQEDTEAVFKKALLAVIGADSVTLKNKYLD
WAYRSGGYKKARAVFKSLQESRPFSVDFFRKMIQFEKEQESCNMANIREY
YERALREFGSADSDLWMDYMKEELNHPLGRPENCGQIYWRAMKMLQGESA
EAFVAKHAMHQTGHL*
a.a.
length
InterPro Name
length(33), motif(24:56) 33 IPR003107 HAT (Half-A-TPR) repeat [Repeat]
length(34), motif(27:60) 34 IPR011990 Tetratricopeptide-like helical domain [Domain]
length(32), motif(172:203) 32 IPR003107 HAT (Half-A-TPR) repeat [Repeat]
length(168), motif(239:406) 168 IPR011990 Tetratricopeptide-like helical domain [Domain]
length(35), motif(320:354) 35 IPR003107 HAT (Half-A-TPR) repeat [Repeat]
length(33), motif(356:388) 33 IPR003107 HAT (Half-A-TPR) repeat [Repeat]
length(34), motif(392:425) 34 IPR003107 HAT (Half-A-TPR) repeat [Repeat]

Gene function information  Gene family PPI viewer Similarity Search Tool TACT
H-Inv ID HIT000088695
H-Inv cluster ID Locus viewHIX0013690
Accession number BC015454.1
CAGE tag ID NA
EST ID NA
Transcript feature  Help NO; 
Coding potential  Help Protein coding; 
Definition Similar to U3 small nucleolar RNA-associated protein 6 homolog.
Similarity category  Help Category: Similar to known protein(Category II).
Similar to known protein (NP_060898)  [Identity/coverage = 100.0%/99.33%] 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 UTP6
HGNC aliases "chromosome 17 open reading frame 40"
HGNC name UTP6, small subunit (SSU) processome component, homolog (yeast)
DDBJ UTP6
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 HIP000070952
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:55813
KEGG GENES KEGG GENES(55813)
GeneCard GeneCardUTP6*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 protein binding (GO:0005515); 
Biological process RNA processing (GO:0006396); 
Cellular component intracellular (GO:0005622); 

Subcellular localization information  Last modified:27-May-2015
WoLF PSORT cytosol;  nuclear;  peroxisome; 
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.

Protein structure information (GTOP) GTOP Last modified:27-May-2015
Start End PDB_ID E-value Identity Coverage SCOP_ID
266 443 2ondA1 2e-12 19.2 172/100 a.118.8.7
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 AGhsA150405; 
Affymetrix
GeneChip
HG-Focus 218715_at; 
HG-U133 218715_at; 
HG-U133A 218715_at; 
HG-U133A_2 218715_at; 
HG-U133B NA
HG-U133_Plus_2 218715_at; 
HG-U95 44861_at;  50166_at; 
HG-U95A NA
HG-U95B 44861_at;  50166_at; 
HG-U95C NA
HG-U95D NA
HG-U95E NA
HG-U95Av2 NA
HuEx-1_0 3624325;  3624326;  3624329;  3717394;  3752443;  3752444;  3752445;  3752446;  3752448;  3752450;  3752451;  3752454;  3752455;  3752457;  3752459;  3752461;  3752462;  3752463;  3752465;  3752466;  3752467;  3752468;  3752469;  3752470;  3752473; 
HuGeneFL NA
Agilent Human 1A Oligo Microarray:PGID215 A_23_P164237; 
Whole Human Genome Oligo Microarray:PGID247 A_23_P164237; 
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
45 .. 45 G/A rs78272471 - 5'UTR
53 .. 53 T/C rs199526310 - 5'UTR
59 .. 59 T/C rs113076339 - 5'UTR
82 .. 82 G/T rs76761783 - 5'UTR
92 .. 92 A/G rs16967042 - 5'UTR
102 .. 102 C/G rs139107049 - 5'UTR
130 .. 130 A/G rs111969582 - 5'UTR
133 .. 133 C/A rs146195806 - 5'UTR
171 .. 171 A/G rs141634580 - 5'UTR
194 .. 194 A/G rs3760454 + 5'UTR
196 .. 196 A/G rs113806075 - 5'UTR
208 .. 208 C/T rs201848137 - 5'UTR
250 .. 250 A/C rs202236562 - 5'UTR
303 .. 303 C/T rs144023831 - 5'UTR
362 .. 362 G/A rs149514713 - 5'UTR
388 .. 388 T/G rs34859443 + CDS Nonsynonymous[Leu2Val]
412 .. 412 G/T rs201757154 - CDS Nonsynonymous[Ala10Ser]
419 .. 419 G/A rs201254967 - CDS AA-STOP[Trp12*]
451 .. 451 C/G rs139868836 - CDS Nonsynonymous[Arg23Gly]
469 .. 469 G/A rs188357533 - CDS Nonsynonymous[Ala29Thr]
487 .. 487 C/T rs141480679 - CDS Nonsynonymous[Arg35Cys]
490 .. 490 G/T rs199527189 - CDS Nonsynonymous[Ala36Ser]
496 .. 496 C/T rs138291704 - CDS Nonsynonymous[Arg38Cys]
497 .. 497 G/A rs200732643 - CDS Nonsynonymous[Arg38His]
533 .. 533 A/T rs147043256 - CDS Nonsynonymous[Tyr50Phe]
550 .. 550 A/G rs201293446 - CDS Nonsynonymous[Met56Val]
561 .. 561 A/G rs115268338 - CDS Synonymous[Glu59Glu]
578 .. 578 A/C rs151277876 - CDS Nonsynonymous[Lys65Thr]
579 .. 579 G/C rs142388164 - CDS Nonsynonymous[Lys65Asn]
581 .. 581 A/C rs200394185 - CDS Nonsynonymous[Glu66Ala]
646 .. 646 G/A rs113683685 - CDS Nonsynonymous[Glu88Lys]
719 .. 719 C/T rs146623373 - CDS Nonsynonymous[Ser112Leu]
720 .. 720 G/A rs138959717 - CDS Synonymous[Ser112Ser]
749 .. 749 A/G rs144499286 - CDS Nonsynonymous[Asp122Gly]
758 .. 758 A/G rs201823042 - CDS Nonsynonymous[Lys125Arg]
834 .. 834 A/T rs147328342 - CDS Nonsynonymous[Leu150Phe]
848 .. 848 A/G rs200620009 - CDS Nonsynonymous[Gln155Arg]
877 .. 877 G/A rs201014530 - CDS Nonsynonymous[Ala165Thr]
899 .. 899 G/A rs201792460 - CDS Nonsynonymous[Arg172Gln]
909 .. 909 G/C rs139786553 - CDS Nonsynonymous[Glu175Asp]
923 .. 923 T/C rs146176883 - CDS Nonsynonymous[Val180Ala]
938 .. 938 T/G rs149676036 - CDS Nonsynonymous[Val185Gly]
951 .. 951 A/C rs139498305 - CDS Synonymous[Pro189Pro]
1001 .. 1001 C/G rs185388825 - CDS Nonsynonymous[Thr206Ser]
1030 .. 1030 G/C rs79809527 - CDS Nonsynonymous[Gly216Arg]
1063 .. 1063 A/G rs188945229 - CDS Nonsynonymous[Arg227Gly]
1209 .. 1209 G/C rs199600351 - CDS Nonsynonymous[Gln275His]
1223 .. 1223 T/G rs77929397 - CDS Nonsynonymous[Val280Gly]
1241 ^ 1242 -/T rs35553636 - CDS
1271 .. 1271 C/G/A rs150542174 - CDS
1401 .. 1401 C/T rs199682205 - CDS Synonymous[Ala339Ala]
1499 .. 1499 G/A rs141710819 - CDS Nonsynonymous[Arg372Gln]
1614 .. 1614 C/T rs138066981 - CDS Synonymous[Ser410Ser]
1619 .. 1619 A/G rs147417068 - CDS Nonsynonymous[Asp412Gly]
1673 .. 1673 G/A rs200802612 - CDS Nonsynonymous[Arg430Lys]
1685 .. 1685 G/A rs201762567 - CDS Nonsynonymous[Cys434Tyr]
1702 .. 1702 C/T rs199655991 - CDS AA-STOP[Arg440*]
1759 .. 1759 A/G rs142869504 - CDS Nonsynonymous[Met459Val]
1812 .. 1812 T/C rs16967028 - 3'UTR
1949 .. 1949 T/G rs146353822 - 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