Variant report

No.	Distal block	Cell Line	Cell type
1	chr6:140225807..140228413-chr6:140231384..140235063,4	K562	blood:
2	chr6:140225807..140230078-chr6:140231384..140234205,4	K562	blood:
3	chr6:140225413..140228296-chr6:140229716..140233869,3	MCF-7	breast:

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs2223966	0.80[ASN][1000 genomes]
rs4896494	0.86[JPT][hapmap];0.82[MKK][hapmap]
rs581559	0.80[ASN][1000 genomes]
rs590585	0.87[CHB][hapmap];0.80[ASN][1000 genomes]
rs591822	0.84[EUR][1000 genomes]
rs592755	0.80[ASN][1000 genomes]
rs606159	0.80[ASN][1000 genomes]
rs607649	0.84[EUR][1000 genomes]
rs608122	0.80[ASN][1000 genomes]
rs613274	0.82[CHB][hapmap]
rs618471	0.86[CHB][hapmap];0.80[ASN][1000 genomes]
rs620639	0.84[EUR][1000 genomes]
rs624260	0.84[EUR][1000 genomes]
rs632430	0.85[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.83[MEX][hapmap];0.82[TSI][hapmap];0.85[ASN][1000 genomes]
rs633026	0.80[ASN][1000 genomes]
rs642162	0.83[CHB][hapmap];0.86[JPT][hapmap];0.92[YRI][hapmap]
rs675016	0.84[EUR][1000 genomes]
rs677638	0.82[EUR][1000 genomes]
rs6904492	0.82[CHB][hapmap]
rs9376478	0.82[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869066	chr6:139777114-140639695	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	26 gene(s)	inside rSNPs	diseases
2	nsv830820	chr6:140059279-140255292	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a
3	nsv1017015	chr6:140084137-140300565	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv1019407	chr6:140087307-140304334	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv1016532	chr6:140174639-141029988	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs591269	LTV1	cis	cerebellum	SCAN

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:140224000-140228200	Enhancers	Primary monocytes fromperipheralblood	blood
2	chr6:140224600-140228000	Enhancers	Primary neutrophils fromperipheralblood	blood
3	chr6:140224800-140228200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr6:140225800-140228000	Enhancers	Monocytes-CD14+_RO01746	blood
5	chr6:140226200-140228400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr6:140227000-140228400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
7	chr6:140227000-140247600	Weak transcription	Small Intestine	intestine
8	chr6:140227400-140228200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr6:140227400-140228400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr6:140227400-140238600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr6:140227600-140239200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

Quick Search: