Variant report

Variant	rs17028640
Chromosome Location	chr2:98306221-98306222
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	chr2:98279098..98281561-chr2:98304916..98307735,3	MCF-7	breast:
2	chr2:98278665..98281371-chr2:98305087..98308005,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000228486	Chromatin interaction
ENSG00000201806	Chromatin interaction
ENSG00000115073	Chromatin interaction

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10460480	1.00[AMR][1000 genomes]
rs17022096	1.00[ASW][hapmap];0.82[LWK][hapmap];1.00[AMR][1000 genomes]
rs17022495	1.00[AMR][1000 genomes]
rs17028435	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17028568	1.00[ASW][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];0.97[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17028771	0.89[YRI][hapmap];0.82[AFR][1000 genomes]
rs17028924	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs17029878	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs17031009	1.00[AMR][1000 genomes]
rs2167008	1.00[AMR][1000 genomes]
rs55637939	1.00[AMR][1000 genomes]
rs55757705	0.92[AFR][1000 genomes]
rs55766309	0.85[AFR][1000 genomes]
rs56045386	1.00[AMR][1000 genomes]
rs56381875	1.00[AMR][1000 genomes]
rs56717024	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56894046	1.00[AMR][1000 genomes]
rs57002448	1.00[AMR][1000 genomes]
rs57183691	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57875000	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58059561	1.00[AMR][1000 genomes]
rs58383658	0.84[AFR][1000 genomes]
rs58753916	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59134572	1.00[AMR][1000 genomes]
rs59340312	1.00[AMR][1000 genomes]
rs60599690	1.00[AMR][1000 genomes]
rs60713338	1.00[AMR][1000 genomes]
rs61016336	1.00[AMR][1000 genomes]
rs72951140	1.00[AMR][1000 genomes]
rs73959761	1.00[AMR][1000 genomes]
rs73959772	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9678135	1.00[ASW][hapmap];1.00[LWK][hapmap];0.97[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][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	esv2757819	chr2:97571109-98336507	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	64 gene(s)	inside rSNPs	diseases
2	esv2759077	chr2:97571109-98336507	Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Weak transcription Strong transcription Bivalent/Poised TSS Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	64 gene(s)	inside rSNPs	diseases
3	esv1829350	chr2:98170405-98315611	Enhancers Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Weak transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
4	nsv531382	chr2:98250628-98457616	Weak transcription Enhancers Active TSS Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:98281000-98323800	Weak transcription	Gastric	stomach
2	chr2:98292200-98317800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr2:98305000-98307600	Weak transcription	HMEC	breast
4	chr2:98305200-98307400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr2:98305400-98307600	Weak transcription	HUES6 Cell Line	embryonic stem cell
6	chr2:98305600-98307600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
7	chr2:98305600-98307600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
8	chr2:98305600-98307600	Weak transcription	HUES48 Cell Line	embryonic stem cell
9	chr2:98305600-98313600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
10	chr2:98306000-98322400	Weak transcription	Fetal Stomach	stomach
11	chr2:98306200-98307800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

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