Variant report

Variant	rs4590308
Chromosome Location	chr6:109576130-109576131
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:15)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:15 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:109573548..109576150-chr6:109616367..109617967,2	MCF-7	breast:
2	chr6:109573090..109575242-chr6:109576098..109578266,2	K562	blood:
3	chr6:109571108..109577979-chr6:109701689..109707468,12	MCF-7	breast:
4	chr6:109573915..109576390-chr6:109614861..109616762,2	K562	blood:
5	chr6:109574818..109576352-chr6:109658759..109661522,2	MCF-7	breast:
6	chr6:109556276..109560005-chr6:109575882..109579076,3	K562	blood:
7	chr6:109575810..109578673-chr6:109582353..109584012,2	MCF-7	breast:
8	chr6:109557258..109559203-chr6:109573548..109577382,4	K562	blood:
9	chr6:109574650..109576524-chr6:109616108..109618484,2	MCF-7	breast:
10	chr6:109572844..109579013-chr6:109586013..109590515,6	MCF-7	breast:
11	chr6:109575180..109577688-chr6:109650162..109652343,2	MCF-7	breast:
12	chr6:109414510..109416142-chr6:109575916..109578118,2	MCF-7	breast:
13	chr6:109572724..109576435-chr6:109701396..109704510,5	MCF-7	breast:
14	chr6:109572927..109577072-chr6:109577808..109581744,6	MCF-7	breast:
15	chr6:109571949..109573632-chr6:109575692..109577671,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000243587	Chromatin interaction
ENSG00000080546	Chromatin interaction
ENSG00000260273	Chromatin interaction
ENSG00000135535	Chromatin interaction
ENSG00000203799	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs1040285	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1113665	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1113666	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.85[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs11153163	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13216168	0.85[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs1341269	1.00[CEU][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1815038	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2090887	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4945828	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4946951	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4946952	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6919557	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7755798	0.83[CEU][hapmap]
rs7775345	0.87[CEU][hapmap]
rs9320279	0.85[CEU][hapmap];0.91[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs9374067	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9374069	0.81[YRI][hapmap]
rs9386778	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9398190	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv527657	chr6:109533385-109579675	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:109564000-109590400	Weak transcription	Psoas Muscle	Psoas
2	chr6:109572200-109578800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr6:109572400-109577600	Enhancers	Adipose Nuclei	Adipose
4	chr6:109572600-109577800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr6:109572800-109590400	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr6:109572800-109595200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr6:109573200-109589800	Weak transcription	HUES6 Cell Line	embryonic stem cell
8	chr6:109573600-109577800	Weak transcription	A549	lung
9	chr6:109573600-109590200	Weak transcription	Gastric	stomach
10	chr6:109573800-109577200	Weak transcription	K562	blood
11	chr6:109574400-109577800	Weak transcription	Liver	Liver
12	chr6:109574400-109579400	Weak transcription	Fetal Intestine Large	intestine
13	chr6:109574600-109576800	Weak transcription	Fetal Intestine Small	intestine
14	chr6:109574600-109583400	Weak transcription	Placenta	Placenta
15	chr6:109574800-109577000	Weak transcription	Rectal Mucosa Donor 29	rectum
16	chr6:109574800-109578800	Weak transcription	HepG2	liver
17	chr6:109575000-109576600	Weak transcription	Rectal Mucosa Donor 31	rectum
18	chr6:109575000-109576800	Weak transcription	Stomach Mucosa	stomach
19	chr6:109575200-109582800	Weak transcription	Colon Smooth Muscle	Colon
20	chr6:109575400-109577600	Enhancers	Fetal Muscle Leg	muscle
21	chr6:109575800-109578200	Weak transcription	Fetal Muscle Trunk	muscle
22	chr6:109575800-109589200	Weak transcription	Pancreas	Pancrea
23	chr6:109576000-109576200	Weak transcription	Fetal Kidney	kidney
24	chr6:109576000-109576800	Weak transcription	Sigmoid Colon	Sigmoid Colon
25	chr6:109576000-109577400	Weak transcription	Fetal Stomach	stomach

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