H-InvDB x AHG DB
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H-Invitational ID: HIT000013816 Accession number: AK057202 Created date: 26-Mar-2013 Last modified: 27-May-2015
Definition: U3 small nucleolar RNA-associated protein 6 homolog; Hepatocellular carcinoma-associated antigen 66; Multiple hat domains protein;
 
 

Transcript original information
Accession number AK057202.1
CAGE tag ID NA
EST ID NA
Clone Number SYNOV2001033
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 Project:FLJ; Provider:FLJ/HRI; 
Annotation project H-Invitational FLcDNA
Length of cDNA 2009[bp] (No. of exon:19)[A:613 T:528 G:514 C:354]
Devision HUM
Molecular type mRNA
Library origin Cell type NA
Tissue type synovial membrane tissue from rheumatioid arthritis
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) 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 30190193- 30228676
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 HIP000026514
Predicted CDS 31..1824;  597[aa];  Orientation:+1; 
Codon Adaptation Index (CAI). 0.736

Motif information
ORF

length(597),orf(31:1824)
MAEVIQERIEDRLPELEQLERIGLFSHAEIKAIIKKASDLEYKIQRRTLF
KEDFINYVQYEINLLELIRRRRTRIGYSFKKDEIENSIVHRVQGVFQRAS
AKWKDDVQLWLSYVAFCKKWATKTRLSKVFSAMLAIHSNKPALWIMAAKW
EMEDRLSSESARQLFLRALRFHPECPKLYKEYFRMELMHAEKLRKEKEEF
EKASMDVENPDYSEEILKGELAWIIYKNSVSIIKGAEFHVSLLSIAQLFD
FAKDLQKEIYDDLQALHTDDPLTWDYVARRELEIESQTEEQPTTKQAKAV
EVGRKEERCCAVYEEAVKTLPTEAMWKCYITFCLERFTKKSNSGFLRGKR
LERTMTVFRKAHELKLLSECQYKQLSVSLLCYNFLREALEVAVAGTELFR
DSGTMWQLKLQVLIESKSPDIAMLFEEAFVHLKPQVCLPLWISWAEWSEG
AKSQEDTEAVFKKALLAVIGADSVTLKNKYLDWAYRSGGYKKARAVFKSL
QESRPFSVDFFRKMIQFEKEQESCNMANIREYYERALREFGSADSDLWMD
YMKEELNHPLGRPENCGQIYWRAMKMLQGESAEAFVAKHAMHQTGHL*
a.a.
length
InterPro Name
length(84), motif(9:92) 84 IPR013949 U3 small nucleolar RNA-associated protein 6 [Domain]
length(33), motif(87:119) 33 IPR003107 HAT (Half-A-TPR) repeat [Repeat]
length(33), motif(121:153) 33 IPR003107 HAT (Half-A-TPR) repeat [Repeat]
length(65), motif(128:192) 65 IPR011990 Tetratricopeptide-like helical domain [Domain]
length(33), motif(156:188) 33 IPR003107 HAT (Half-A-TPR) repeat [Repeat]
length(32), motif(304:335) 32 IPR003107 HAT (Half-A-TPR) repeat [Repeat]
length(168), motif(371:538) 168 IPR011990 Tetratricopeptide-like helical domain [Domain]
length(35), motif(452:486) 35 IPR003107 HAT (Half-A-TPR) repeat [Repeat]
length(33), motif(488:520) 33 IPR003107 HAT (Half-A-TPR) repeat [Repeat]
length(34), motif(524:557) 34 IPR003107 HAT (Half-A-TPR) repeat [Repeat]

Gene function information  Gene family PPI viewer Similarity Search Tool TACT
H-Inv ID HIT000013816
H-Inv cluster ID Locus viewHIX0013690
Accession number AK057202.1
CAGE tag ID NA
EST ID NA
Transcript feature  Help NO; 
Coding potential  Help Protein coding; 
Definition U3 small nucleolar RNA-associated protein 6 homolog; Hepatocellular carcinoma-associated antigen 66; Multiple hat domains protein;
Similarity category  Help Category: Identical to known human protein(Category I).
Identical to known human protein (Q9NYH9)  [Identity/coverage = 99.665%/100.0%] to Homo sapiens (Human). protein.
Experimental evidence Protein evidence
PubMed ID 10843809120974191242984915489334ALL
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 NA
UniProt UTP6
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 HIP000026514
No. of interaction 4
Interaction partner(s) HIP000047677HIP000060911HIP000060911HIP000086920
BIND NA
DIP NA
MINT MINT-67466;  MINT-68193;  MINT-68353; 
HPRD 02345;  14526;  16101; 
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;  mitochondria;  peroxisome; 
Target P Other
SOSUI soluble protein
TMHMM soluble protein
PTS1 Twilight zone
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
83 189 2ondA1 8e-05 14.8 107/100 a.118.8.7
398 575 2ondA1 8e-13 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
12 .. 12 G/C rs187992682 - 5'UTR
21 .. 21 C/T/G rs2074101 - 5'UTR
30 .. 30 C/T rs111907415 - 5'UTR
87 .. 87 G/A rs78272471 - CDS Synonymous[Leu19Leu]
95 .. 95 T/C rs199526310 - CDS Nonsynonymous[Ile22Thr]
101 .. 101 T/C rs113076339 - CDS Nonsynonymous[Leu24Pro]
124 .. 124 G/T rs76761783 - CDS Nonsynonymous[Ala32Ser]
134 .. 134 A/G rs16967042 - CDS Nonsynonymous[Lys35Arg]
144 .. 144 C/G rs139107049 - CDS Synonymous[Ser38Ser]
172 .. 172 A/G rs111969582 - CDS Nonsynonymous[Thr48Ala]
175 .. 175 C/A rs146195806 - CDS Nonsynonymous[Leu49Ile]
213 .. 213 A/G rs141634580 - CDS Synonymous[Glu61Glu]
236 .. 236 G/A rs3760454 + CDS Nonsynonymous[Arg69Gln]
238 .. 238 A/G rs113806075 - CDS Nonsynonymous[Arg70Gly]
250 .. 250 C/T rs201848137 - CDS Nonsynonymous[Arg74Cys]
292 .. 292 A/C rs202236562 - CDS Nonsynonymous[Ile88Leu]
345 .. 345 C/T rs144023831 - CDS Synonymous[Asp105Asp]
404 .. 404 G/A rs149514713 - CDS Nonsynonymous[Arg125Gln]
430 .. 430 T/G rs34859443 + CDS Nonsynonymous[Leu134Val]
454 .. 454 G/T rs201757154 - CDS Nonsynonymous[Ala142Ser]
461 .. 461 G/A rs201254967 - CDS AA-STOP[Trp144*]
493 .. 493 C/G rs139868836 - CDS Nonsynonymous[Arg155Gly]
511 .. 511 G/A rs188357533 - CDS Nonsynonymous[Ala161Thr]
529 .. 529 C/T rs141480679 - CDS Nonsynonymous[Arg167Cys]
532 .. 532 G/T rs199527189 - CDS Nonsynonymous[Ala168Ser]
538 .. 538 C/T rs138291704 - CDS Nonsynonymous[Arg170Cys]
539 .. 539 G/A rs200732643 - CDS Nonsynonymous[Arg170His]
575 .. 575 A/T rs147043256 - CDS Nonsynonymous[Tyr182Phe]
592 .. 592 A/G rs201293446 - CDS Nonsynonymous[Met188Val]
603 .. 603 A/G rs115268338 - CDS Synonymous[Glu191Glu]
620 .. 620 A/C rs151277876 - CDS Nonsynonymous[Lys197Thr]
621 .. 621 G/C rs142388164 - CDS Nonsynonymous[Lys197Asn]
623 .. 623 A/C rs200394185 - CDS Nonsynonymous[Glu198Ala]
688 .. 688 G/A rs113683685 - CDS Nonsynonymous[Glu220Lys]
761 .. 761 C/T rs146623373 - CDS Nonsynonymous[Ser244Leu]
762 .. 762 G/A rs138959717 - CDS Synonymous[Ser244Ser]
791 .. 791 A/G rs144499286 - CDS Nonsynonymous[Asp254Gly]
800 .. 800 A/G rs201823042 - CDS Nonsynonymous[Lys257Arg]
876 .. 876 A/T rs147328342 - CDS Nonsynonymous[Leu282Phe]
890 .. 890 A/G rs200620009 - CDS Nonsynonymous[Gln287Arg]
919 .. 919 G/A rs201014530 - CDS Nonsynonymous[Ala297Thr]
941 .. 941 G/A rs201792460 - CDS Nonsynonymous[Arg304Gln]
951 .. 951 G/C rs139786553 - CDS Nonsynonymous[Glu307Asp]
965 .. 965 T/C rs146176883 - CDS Nonsynonymous[Val312Ala]
980 .. 980 T/G rs149676036 - CDS Nonsynonymous[Val317Gly]
993 .. 993 A/C rs139498305 - CDS Synonymous[Pro321Pro]
1043 .. 1043 C/G rs185388825 - CDS Nonsynonymous[Thr338Ser]
1072 .. 1072 G/C rs79809527 - CDS Nonsynonymous[Gly348Arg]
1105 .. 1105 A/G rs188945229 - CDS Nonsynonymous[Arg359Gly]
1251 .. 1251 G/C rs199600351 - CDS Nonsynonymous[Gln407His]
1265 .. 1265 T/G rs77929397 - CDS Nonsynonymous[Val412Gly]
1283 ^ 1284 -/T rs35553636 - CDS
1313 .. 1313 C/G/A rs150542174 - CDS
1443 .. 1443 C/T rs199682205 - CDS Synonymous[Ala471Ala]
1541 .. 1541 G/A rs141710819 - CDS Nonsynonymous[Arg504Gln]
1656 .. 1656 C/T rs138066981 - CDS Synonymous[Ser542Ser]
1661 .. 1661 A/G rs147417068 - CDS Nonsynonymous[Asp544Gly]
1715 .. 1715 G/A rs200802612 - CDS Nonsynonymous[Arg562Lys]
1727 .. 1727 G/A rs201762567 - CDS Nonsynonymous[Cys566Tyr]
1744 .. 1744 C/T rs199655991 - CDS AA-STOP[Arg572*]
1801 .. 1801 A/G rs142869504 - CDS Nonsynonymous[Met591Val]
1854 .. 1854 T/C rs16967028 - 3'UTR
1991 .. 1991 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