Variant report

Variant	rs9368562
Chromosome Location	chr6:28174402-28174403
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:28170074..28175450-chr6:28180913..28183647,5	K562	blood:
2	chr6:28170099..28172681-chr6:28173612..28177819,3	K562	blood:
3	chr6:28109242..28110938-chr6:28172802..28175131,2	MCF-7	breast:
4	chr6:28172570..28175998-chr6:28183959..28188768,7	K562	blood:
5	chr6:28154709..28159711-chr6:28172250..28177968,6	K562	blood:
6	chr6:28174164..28176650-chr6:28369447..28371283,2	K562	blood:
7	chr6:28166299..28169743-chr6:28173090..28175496,4	K562	blood:

Variant related genes	Relation type
ENSG00000218016	Chromatin interaction
ENSG00000176933	Chromatin interaction
ENSG00000198315	Chromatin interaction

Extended variants
information (count: 66 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs1150672	0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1150674	0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1150676	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1150680	1.00[CEU][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1150683	1.00[CEU][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1150684	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1225594	0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1225709	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1225711	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1233784	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1237873	0.83[JPT][hapmap]
rs1416997	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1480646	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1529749	1.00[CEU][hapmap]
rs1613149	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1654777	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1654778	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs169432	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes]
rs169433	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs172164	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1770130	1.00[CEU][hapmap];0.92[JPT][hapmap];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1770133	0.89[EUR][1000 genomes]
rs17709097	1.00[CEU][hapmap]
rs17709109	1.00[CEU][hapmap]
rs17709523	1.00[CEU][hapmap]
rs17765491	1.00[CEU][hapmap]
rs1871695	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2030008	0.82[CEU][hapmap]
rs203865	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs203868	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs203870	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs203871	0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs203875	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs203881	1.00[CEU][hapmap];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs203885	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs203891	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs203894	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2394044	1.00[CEU][hapmap]
rs2791334	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs370266	0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs392665	0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs41375446	1.00[CEU][hapmap]
rs427348	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs539474	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs57349346	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs58909320	0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs73740569	0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73740570	0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73742609	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9348782	1.00[CEU][hapmap]
rs9348790	1.00[CEU][hapmap]
rs9348791	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9348795	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9357055	1.00[CEU][hapmap]
rs9357056	1.00[CEU][hapmap]
rs9368545	1.00[CEU][hapmap]
rs9380042	1.00[CEU][hapmap]
rs9393873	1.00[CEU][hapmap]
rs9393874	1.00[CEU][hapmap]
rs9393878	0.82[CEU][hapmap]
rs9393879	1.00[CEU][hapmap]
rs9393905	0.85[AFR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv883514	chr6:28155418-28185726	Active TSS Bivalent/Poised TSS Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
2	nsv883515	chr6:28156476-28181675	Flanking Bivalent TSS/Enh Enhancers Weak transcription Bivalent/Poised TSS Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
3	nsv883516	chr6:28156476-28185726	Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Weak transcription Bivalent/Poised TSS Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
4	nsv830620	chr6:28173997-28348033	Flanking Active TSS Strong transcription Active TSS Bivalent/Poised TSS Weak transcription ZNF genes & repeats Enhancers Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	51 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:28173800-28174800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
2	chr6:28174000-28176400	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
3	chr6:28174200-28174800	Enhancers	Duodenum Mucosa	Duodenum
4	chr6:28174200-28174800	Bivalent/Poised TSS	Duodenum Smooth Muscle	Duodenum
5	chr6:28174200-28174800	Enhancers	Rectal Mucosa Donor 31	rectum
6	chr6:28174200-28176400	Bivalent/Poised TSS	Rectal Mucosa Donor 29	rectum
7	chr6:28174400-28174600	Flanking Bivalent TSS/Enh	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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