Variant report

Variant	rs12201623
Chromosome Location	chr6:134000046-134000047
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:133135284..133137097-chr6:133999263..134001156,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000206754	Chromatin interaction
ENSG00000112306	Chromatin interaction

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs10457608	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs10457609	1.00[AFR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10782252	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs10782253	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs10782254	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs10872410	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10872411	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12190055	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12191306	1.00[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs12193686	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12194247	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12194817	1.00[ASN][1000 genomes]
rs12194886	1.00[AFR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12195870	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs12195892	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12196164	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12198984	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs12200438	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12201171	1.00[ASN][1000 genomes]
rs12201875	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12202735	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12203264	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12204957	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs12205960	1.00[AFR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12206565	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12206990	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12207502	1.00[AFR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12207687	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12207690	1.00[AFR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12207826	1.00[AFR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12212162	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12212442	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12212992	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs12215554	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12215845	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12216357	1.00[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs17062823	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1884162	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61729591	1.00[AFR][1000 genomes]
rs9321410	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9483596	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9483606	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9483612	0.84[EUR][1000 genomes]
rs9493679	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9493707	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9493717	0.96[AMR][1000 genomes];1.00[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	nsv1032687	chr6:133987372-134059728	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer 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
2	nsv1024201	chr6:133987372-134062162	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv830812	chr6:133993897-134165407	Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:133994400-134001600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr6:133994600-134001800	Weak transcription	Ovary	ovary
3	chr6:133996200-134002400	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr6:133996200-134002400	Weak transcription	HUES64 Cell Line	embryonic stem cell
5	chr6:133996400-134000800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
6	chr6:133996400-134002800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
7	chr6:133997400-134000800	Weak transcription	Fetal Lung	lung
8	chr6:133998600-134002200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr6:134000000-134000600	Enhancers	Fetal Kidney	kidney
10	chr6:134000000-134001000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell

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