Variant report

Variant	rs6049703
Chromosome Location	chr20:24432426-24432427
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 10 )
Associated
traits (count: 9 )

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs17823686	1.00[EUR][1000 genomes]
rs55642683	1.00[EUR][1000 genomes]
rs6114709	0.85[EUR][1000 genomes]
rs6114710	0.85[EUR][1000 genomes]
rs6114728	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs6114731	0.85[EUR][1000 genomes]
rs68032297	0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv9793	chr20:23939613-24734850	Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv1058146	chr20:24210196-24531087	Bivalent Enhancer Weak transcription Flanking Active TSS Bivalent/Poised TSS Enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv833946	chr20:24320375-24490702	Enhancers Bivalent Enhancer Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:9)

SNP	Gene	Cis/trans	Tissue	Source
rs6049703	DNAJB1	trans	brain	seeQTL
rs6049703	HSPA6	trans	brain	seeQTL
rs6049703	HSPA1A	trans	brain	seeQTL
rs6049703	HSPH1	trans	brain	seeQTL
rs6049703	ACBD3	trans	brain	seeQTL
rs6049703	XBP1	trans	brain	seeQTL
rs6049703	HSPA1B	trans	brain	seeQTL
rs6049703	DNAJB4	trans	brain	seeQTL
rs6049703	HSPD1	trans	brain	seeQTL

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:24426600-24435800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr20:24427400-24436600	Weak transcription	Brain Hippocampus Middle	brain
3	chr20:24429000-24433200	Weak transcription	Gastric	stomach
4	chr20:24429000-24434200	Weak transcription	Dnd41	blood
5	chr20:24429400-24434400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
6	chr20:24429800-24434400	Weak transcription	Fetal Thymus	thymus
7	chr20:24430000-24434200	Weak transcription	Primary T cells from cord blood	blood
8	chr20:24431200-24432600	Enhancers	Fetal Brain Male	brain
9	chr20:24431800-24433200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr20:24432000-24435600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr20:24432200-24432600	Enhancers	Brain Inferior Temporal Lobe	brain
12	chr20:24432400-24432800	Weak transcription	Spleen	Spleen
13	chr20:24432400-24439200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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