Variant report

Variant	rs35227817
Chromosome Location	chr6:12866528-12866529
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	chr6:12863028..12864927-chr6:12865342..12867413,2	MCF-7	breast:
2	chr6:12864394..12867910-chr6:12868654..12871064,3	MCF-7	breast:

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs13191496	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13194950	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13198167	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13205779	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16873462	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34348949	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35395772	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35621699	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35954478	1.00[EUR][1000 genomes]
rs36043593	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55637633	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55803153	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62389889	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62389892	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62389893	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62389894	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62389900	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6900427	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6912532	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6914233	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6914467	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6924353	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6927781	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7741088	0.81[AFR][1000 genomes]

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	esv3521000	chr6:12561306-13128519	Enhancers Weak transcription Bivalent/Poised TSS Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	esv3521001	chr6:12561306-13128519	Weak transcription Flanking Active TSS Bivalent Enhancer Enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv830587	chr6:12769661-12939875	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv830588	chr6:12793530-12972493	Enhancers Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv1027534	chr6:12858048-12877597	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:12849800-12867000	Weak transcription	Brain Anterior Caudate	brain
2	chr6:12853400-12870000	Weak transcription	Brain Germinal Matrix	brain
3	chr6:12865400-12867800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
4	chr6:12865800-12867200	Enhancers	ES-WA7 Cell Line	embryonic stem cell
5	chr6:12865800-12867200	Weak transcription	Fetal Brain Male	brain
6	chr6:12865800-12867800	Enhancers	iPS-15b Cell Line	embryonic stem cell
7	chr6:12866000-12867400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr6:12866000-12867600	Enhancers	HUES48 Cell Line	embryonic stem cell
9	chr6:12866000-12867800	Enhancers	H9 Cell Line	embryonic stem cell
10	chr6:12866000-12867800	Enhancers	HUES64 Cell Line	embryonic stem cell
11	chr6:12866200-12866600	Active TSS	ES-I3 Cell Line	embryonic stem cell
12	chr6:12866200-12866600	Weak transcription	H1 Cell Line	embryonic stem cell
13	chr6:12866200-12866600	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
14	chr6:12866200-12866800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr6:12866200-12867600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
16	chr6:12866200-12868000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
17	chr6:12866200-12868000	Enhancers	HUES6 Cell Line	embryonic stem cell
18	chr6:12866400-12866800	Enhancers	iPS-18 Cell Line	embryonic stem cell
19	chr6:12866400-12867400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr6:12866400-12867400	Enhancers	Cortex derived primary cultured neurospheres	brain

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