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: HIT000056250 Accession number: BX647603 Created date: 26-Mar-2013 Last modified: 27-May-2015
Definition: Hypothetical short protein.
 
 

Transcript original information
Accession number BX647603.1
CAGE tag ID NA
EST ID NA
Clone Number DKFZp686L01105
Experimental resources NBRC: NITE Biological Resource Center  NBRC ; HGPD: Human Gene and Protein Database HGPD ; Antibody: searching human antibodies at "BIO-kaimono.com" Antibody (NEAT1) ; Catalog: searching experimental product catalogs at "BIO-kaimono.com" Catalog (NEAT1);
Sequence data provider Provider:DKFZ/MIPS
Annotation project H-Invitational FLcDNA
Length of cDNA 2037[bp] (No. of exon:2)[A:585 T:666 G:474 C:312]
Devision HUM
Molecular type mRNA
Library origin Cell type NA
Tissue type human fetal kidney
Develpmental stage fetal
Mini-G
Sequence quality information
CDS feature Complete CDS
Kozak sequence NA
PolyA Site: 1988(+) Signal: 1965-1969(+)
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 HIX0009795
Genomic location  G-integra Help Chromosome 11
Location 11q13.1
Position 65191802- 65193997
Strand +
Possible duplicated location(s) NA
Gene structure 2 exon(s)
Database links RefSeq NA
Ensembl NA
Entrez Gene NA
KEGG GENES NA
GeneCard GeneCardNEAT1*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 HIP000135161
Predicted CDS 787..906;  39[aa];  Orientation:+1; 
Codon Adaptation Index (CAI). 0.686

Gene function information  Gene family PPI viewer Similarity Search Tool TACT
H-Inv ID HIT000056250
H-Inv cluster ID Locus viewHIX0009795
Accession number BX647603.1
CAGE tag ID NA
EST ID NA
Transcript feature  Help NO; 
Coding potential  Help Protein coding; 
Definition Hypothetical short protein.
Similarity category  Help Category: Hypothetical short protein(Category VI).
Hypothetical short protein.
Experimental evidence NA
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 NEAT1
HGNC aliases "non-protein coding RNA 84"
HGNC name nuclear paraspeckle assembly transcript 1 (non-protein coding)
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 HIP000135161
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 NA
KEGG GENES NA
GeneCard GeneCardNEAT1*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


Subcellular localization information  Last modified:27-May-2015
WoLF PSORT extracellular;  nuclear;  plasma membrane;  Other; 
Target P Not predicted
SOSUI membrane 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:27-May-2015
Tissue-specific expression  H-ANGEL NA
Probe
information DNAProbeLocator
AceGene NA
Affymetrix
GeneChip
HG-Focus NA
HG-U133 214657_s_at;  224565_at;  224566_at; 
HG-U133A 214657_s_at; 
HG-U133A_2 214657_s_at; 
HG-U133B 224565_at;  224566_at; 
HG-U133_Plus_2 214657_s_at;  224565_at;  224566_at; 
HG-U95 38207_at;  66118_at; 
HG-U95A 38207_at; 
HG-U95B NA
HG-U95C 66118_at; 
HG-U95D NA
HG-U95E NA
HG-U95Av2 NA
HuEx-1_0 3335215;  3335219;  3335221;  3335223;  3377614;  3377616;  3377617; 
HuGeneFL U60873_at; 
Agilent Human 1A Oligo Microarray:PGID215 NA
Whole Human Genome Oligo Microarray:PGID247 A_24_P290999;  A_24_P566916;  A_32_P1036; 
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
35 .. 35 T/C rs188867102 + 5'UTR
58 .. 58 G/A rs4133664 + 5'UTR
121 .. 121 A/G rs1938689 + 5'UTR
149 .. 149 C/T rs117102076 + 5'UTR
258 .. 258 A/G rs140061339 + 5'UTR
324 .. 324 T/C rs142359507 + 5'UTR
368 .. 368 T/C rs77364365 + 5'UTR
484 .. 484 T/A rs151283333 + 5'UTR
533 .. 533 A/G rs115818972 + 5'UTR
587 .. 587 T/C rs183892171 + 5'UTR
610 .. 610 A/C rs188365729 + 5'UTR
778 .. 778 G/T rs11556019 + 5'UTR
1061 .. 1061 C/T rs182248431 + 3'UTR
1086 .. 1086 A/T rs75551150 + 3'UTR
1194 .. 1194 T/C rs11556018 + 3'UTR
1345 .. 1345 G/A rs149731712 + 3'UTR
1362 .. 1362 T/C rs115282271 + 3'UTR
1372 .. 1372 T/G rs147848415 + 3'UTR
1407 .. 1407 T/C rs112965233 + 3'UTR
1448 .. 1448 A/G rs146919427 + 3'UTR
1462 .. 1462 G/T rs137932705 + 3'UTR
1534 .. 1534 A/G rs116684193 + 3'UTR
1692 .. 1692 G/T rs13355 - 3'UTR
1912 .. 1912 C/T rs1055519 + 3'UTR
1919 .. 1919 G/A rs149041367 + 3'UTR
1941 .. 1941 A/C rs1055645 + 3'UTR
1947 .. 1947 C/T rs1055665 + 3'UTR
1962 .. 1962 A/C rs1055733 + 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