H-InvDB_9.0 released on May 27, 2015.
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H-Inv ID (HIT)
H-Inv cluster ID (HIX)
H-Inv protein ID (HIP)
H-Inv gene family/group (HIF)
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Definition*
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---
CCDS ID
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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.
Select format
Flat file
XML file
Nucleotide sequence fasta
Protein sequence fasta
Transcript original information
Accession number
BX647603.1
CAGE tag ID
NA
EST ID
NA
Clone Number
DKFZp686L01105
Experimental resources
NBRC
;
HGPD
;
Antibody (NEAT1)
;
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
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
CATCTTCTAAATTGAGCCTCCGGTCATACTAGTTTTGTGCTTGGAACCTT GCTTCAAGAAGATCCCTAAGCTGTAGAACATTTTAACGTTGATGCCACAA CGCAGATTGATGCCTTGTAGATGGAGCTTGCAGATGGAGCCCCGTGACCT CTCACCTACCCACCTGTTTGCCTGCCTTCTTGTGCGTTTCTCGGAGAAGT TCTTAGCCTGATGAAATAACTTGGGGCGTTGAAGAGCTGTTTAATTTTAA ATGCCTTAGACTGGGGATATATTAGAGGAAGCAGATTGTCAAATTAAGGG TGTCATTGTGTTGTGCTAAACGCTGGGAGGGTACAAGTTGGCCATTCCTA AATCTGTGTGTGAGAAATGGCAGGTCTAGTTTGGGCATTGTGATTGCATT GCAGATTACTAGGAGAAGGGAATGGTGGGTACACCGGTAGTGCTCTTTTG TTCTTGCTTCGTTTTTTTAAACTTGAACTTTACTTCGTTAGATTTCATAA TACTTTCTTGGAATTCTCTGGGGCTTTGGGGAATTTAGTGCGTGGGTGAG CCAAGAAAATACTAATTAATAATAGTAAGTTGTTAGTGTTGGTTAAGTTG TTGCTTGGAAGTGAGAAGTTGCTTAGAAACTTTCCAAAGTGCTTAGAACT TTAAGTGCAAACAGACAAACTAACAAACAAAAATTGTTTTGCTTTGCTAC AAGGTGGGGAAGACTGAAGAAGTGTTAACTGAAAACAGGTGACACAGAGT CACCAGTTTTCCGAGAACCAAAGGGAGGGGTGTGTGATGCCATCTCACAG GCAGGGGAAATGTCTTTACCAGCTTCCTCCTGGTGGCCAAGACAGCCTGT TTCAGAGGGTTGTTTTGTTTGGGGTGTGGGTGTTATCAAGTGAATTAGTC ACTTGAAAGATGGGCGTCAGACTTGCATACGCAGCAGATCAGCATCCTTC GCTGCCCCTTAGCAACTTAGGTGGTTGATTTGAAACTGTGAAGGTGTGAT TTTTTCAGGAGCTGGAAGTCTTAGAAAAGCCTTGTAAATGCCTATATTGT GGGCTTTTAACGTATTTAAGGGACCACTTAAGACGAGATTAGATGGGCTC TTCTGGATTTGTTCCTCATTTGTCACAGGTGTCTTGTGATTGAAAATCAT GAGCGAAGTGAAATTGCATTGAATTTCAAGGGAATTTAGTATGTAAATCG TGCCTTAGAAACACATCTGTTGTCTTTTCTGTGTTTGGTCGATATTAATA ATGGCAAAATTTTTGCCTATCTAGTATCTTCAAATTGTAGTCTTTGTAAC AACCAAATAACCTTTTGTGGTCACTGTAAAATTAATATTTGGTAGACAGA ATCCATGTACCTTTGCTAAGGTTAGAATGAATAATTTATTGTATTTTTAA TTTGAATGTTTGTGCTTTTTAAATGAGCCAAGACTAGAGGGGAAACTATC ACCTAAAATCAGTTTGGAAAACAAGACCTAAAAAGGGAAGGGGATGGGGA TTGTGGGGAGAGAGTGGGCGAGGTGCCTTTACTACATGTGTGATCTGAAA ACCCTGCTTGGTTCTGAGCTGCGTCTATTGAATTGGTAAAGTAATACCAA TGGCTTTTTATCATTTCCTTCTTCCCTTTAAGTTTCACTTGAAATTTTAA AAATCATGGTTATTTTTATCGTTGGGATCTTTCTGTCTTCTGGGTTCCAT TTTTTAAATGTTTAAAAATATGTTGACATGGTAGTTCAGTTCTTAACCAA TGACTTGGGGATGATGCAAACAATTACTGTCGTTGGGATTTAGAGTGTAT TAGTCACGCATGTATGGGGAAGTAGTCTCGGGTATGCTGTTGTGAAATTG AAACTGTAAAAGTAGATGGTTGAAAGTACTGGTATGTTGCTCTGTATGGT AAGAACTAATTCTGTTACGTCATGTACATAATTACTAATCACTTTTCTTC CCCTTTACAGCACAAATAAAGTTTGAGTTCTAAACTCAAAAAAAAAAAAA AAAAAAAAAAAAAAAAAGAAAAAAAAAAAAAAAAAAA
Gene structure information
H-Inv cluster ID
HIX0009795
Genomic location
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
NEAT1
;
*GeneCards is provided free to academic non-profit institutions.
Related H-InvDB links
H-DBAS;
G-integra
;
cDNA-genome alignment
;
Predicted CDS information
HIP ID
HIP000135161
Predicted CDS
787..906; 39[aa]; Orientation:+1;
Codon Adaptation Index (CAI).
0.686
MPSHRQGKCLYQLPPGGQDSLFQRVVLFGVWVLSSELVT*
Gene function information
H-Inv ID
HIT000056250
H-Inv cluster ID
HIX0009795
Accession number
BX647603.1
CAGE tag ID
NA
EST ID
NA
Transcript feature
NO;
Coding potential
Protein coding;
Definition
Hypothetical short protein.
Similarity category
Category: Hypothetical short protein(Category VI).
Hypothetical short protein.
Experimental evidence
NA
PubMed ID
NA
Gene family/group
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)
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
NEAT1
;
*GeneCards is provided free to academic non-profit institutions.
etc
Human-Gene diversity Of Life-style related Diseases
;
Curation status
Auto-annotated
Notes
NA
Related H-InvDB links
Gene family;
Similarity Search Tool;
TACT
;
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;
JRE-1.4.0 or later is required.
Download JRE at
Sun's web site.
Gene expression information
Last modified:27-May-2015
Tissue-specific expression
NA
Probe
information
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-ANGEL
;
DNAProbeLocator
;
Polymorphism (SNP, indel), microsatellite (Short Tandem Repeat, STR) and repeat information
Single Nucleotide Polymorphism (SNP) and indel
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
No data available
Database links
Human-Gene diversity Of Life-style related Diseases(H-GOLD)
;
Related H-InvDB links
VaryGene;
Repeat Mask Viewer
;