H-InvDB_8.3 released on March 26, 2013. Search by Keyword H-Inv ID (HIT) H-Inv cluster ID (HIX) H-Inv protein ID (HIP) H-Inv gene family/group (HIF) Accession number Chromosome number Chromosome band Definition* Data source ID --- CCDS ID dbSNP ID (rs number) EC number Ensembl ID EntrezGene ID FR ID FR Accession number GO ID GO name* HGNC gene symbol HGNC gene name* InterPro ID InterPro name* OMIM ID OMIM title* Pathway ID Pathway name* RefSeq (gene) ID RefSeq (protein) ID SCOP ID UniProt for Advanced Search

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H-Invitational ID: HIT000056250 Accession number: BX647603 Created date: 26-Mar-2013 Last modified: 20-Apr-2012 Definition: Non-protein-coding transcript, nuclear paraspeckle assembly transcript 1 (non-protein coding)

		Select format Flat file XML file Nucleotide sequence fasta

Transcript original information Accession number BX647603.1 CAGE tag ID NA EST ID NA Clone Number DKFZp686L01105 Experimental resources   NBRC ; HGPD ; 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 NA 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 Truncation;  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	NR_028272;  NR_030343;
	Ensembl	ENST00000384994;  ENST00000499732;  ENST00000528299;
	Entrez Gene	NA
	KEGG GENES	NA
	GeneCard	NA *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 Predicted CDS NA Codon Adaptation Index (CAI). 0.686

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		Representative transcript;
Coding potential		Non-protein-coding;
Definition		Non-protein-coding transcript, nuclear paraspeckle assembly transcript 1 (non-protein coding)
Classification of non-protein-coding transcripts		Classification: Identical to known ncRNA
		Type: NA
		Identical to known ncRNA (NEAT1) [Identity/coverage = 100.0%/100.0%] to Homo sapiens.
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	NA
	HGNC aliases	NA
	HGNC name	NA
	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	NA
	No. of interaction	NA
	Interaction partner(s)	NA
	BIND	NA
	DIP	NA
	MINT	NA
	HPRD	NA
	IntAct	NA
Database links	RefSeq	NR_028272;  NR_030343;
	Ensembl	ENST00000384994;  ENST00000499732;  ENST00000528299;
	Entrez Gene	NA
	KEGG GENES	NA
	GeneCard	NA *GeneCards is provided free to academic non-profit institutions.
	etc	Human-Gene diversity Of Life-style related Diseases;
Curation status		Human curated
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:20-Apr-2012

WoLF PSORT	NA
Target P
SOSUI
TMHMM
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:20-Apr-2012

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;

Disease/pathology information

Last modified:20-Apr-2012

Disease relation		Disease name:NA
Related information in OMIM		OMIM ID:NA Title:NA
Co-localized orphan diseases		OMIM ID:  604499;  607967;  609270;  609470;  611010;
Disease related mutation		NA
Literature-Extracted GENe-Disease Associations (LEGENDA)	Gene name	NA
	Disease	NA
	Substance	NA
Related H-InvDB links		DiseaseInfo Viewer;  LEGENDA;

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 58 .. 58 G/A rs4133664 + 121 .. 121 A/G rs1938689 + 149 .. 149 C/T rs117102076 + 368 .. 368 T/C rs77364365 + 533 .. 533 A/G rs115818972 + 778 .. 778 G/T rs11556019 + 1086 .. 1086 A/T rs75551150 + 1194 .. 1194 T/C rs11556018 + 1362 .. 1362 T/C rs115282271 + 1407 .. 1407 T/C rs112965233 + 1534 .. 1534 A/G rs116684193 + 1692 .. 1692 C/A rs13355 - 1912 .. 1912 C/T rs1055519 + 1941 .. 1941 A/C rs1055645 + 1947 .. 1947 C/T rs1055665 + 1962 .. 1962 A/C rs1055733 +  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;