Variant report

Variant	rs866455
Chromosome Location	chr1:241999026-241999027
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:241800601..241802586-chr1:241998069..242000945,2	MCF-7	breast:
2	chr1:241800004..241804612-chr1:241997311..242002148,5	K562	blood:
3	chr1:241791375..241793917-chr1:241997921..242000240,2	MCF-7	breast:
4	chr1:241804081..241806043-chr1:241997998..241999955,2	MCF-7	breast:
5	chr1:241681987..241684444-chr1:241997507..241999592,2	K562	blood:
6	chr1:241962861..241964655-chr1:241997833..242000502,2	MCF-7	breast:
7	chr1:241792727..241796800-chr1:241998323..242001938,3	K562	blood:

Variant related genes	Relation type
ENSG00000054277	Chromatin interaction
ENSG00000091483	Chromatin interaction

Extended variants
information (count: 91 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:80)

rs_ID	r²[population]
rs10047251	1.00[ASN][1000 genomes]
rs10926568	1.00[ASN][1000 genomes]
rs10926570	1.00[ASN][1000 genomes]
rs10926572	1.00[ASN][1000 genomes]
rs10926574	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11587777	1.00[ASN][1000 genomes]
rs11589447	1.00[ASN][1000 genomes]
rs12058955	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12060174	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12068835	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12074374	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12075350	1.00[ASN][1000 genomes]
rs12080931	1.00[ASN][1000 genomes]
rs12082827	1.00[ASN][1000 genomes]
rs12088589	1.00[ASN][1000 genomes]
rs12091522	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12091633	1.00[ASN][1000 genomes]
rs12092046	1.00[ASN][1000 genomes]
rs12094877	1.00[ASN][1000 genomes]
rs12095445	1.00[ASN][1000 genomes]
rs13375851	1.00[ASN][1000 genomes]
rs13375852	1.00[ASN][1000 genomes]
rs13375989	1.00[ASN][1000 genomes]
rs1342867	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1635523	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4129119	1.00[ASN][1000 genomes]
rs4658798	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56145959	1.00[ASN][1000 genomes]
rs57034241	1.00[ASN][1000 genomes]
rs57776943	1.00[ASN][1000 genomes]
rs58903593	1.00[ASN][1000 genomes]
rs61825849	1.00[ASN][1000 genomes]
rs61827077	1.00[ASN][1000 genomes]
rs61827078	1.00[ASN][1000 genomes]
rs61827080	1.00[ASN][1000 genomes]
rs61827081	1.00[ASN][1000 genomes]
rs61827082	1.00[ASN][1000 genomes]
rs61827083	1.00[ASN][1000 genomes]
rs61827089	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61827118	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61827120	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61827121	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61827122	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6429298	1.00[ASN][1000 genomes]
rs6429299	1.00[ASN][1000 genomes]
rs6429302	1.00[ASN][1000 genomes]
rs6429308	0.82[EUR][1000 genomes]
rs6429309	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6429310	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6429311	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6660576	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6660686	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6663895	1.00[ASN][1000 genomes]
rs6665240	1.00[ASN][1000 genomes]
rs6667348	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6667772	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6669947	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6670605	1.00[ASN][1000 genomes]
rs6671725	1.00[ASN][1000 genomes]
rs6675602	1.00[ASN][1000 genomes]
rs6678028	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6685969	1.00[ASN][1000 genomes]
rs6690241	1.00[ASN][1000 genomes]
rs6694094	1.00[ASN][1000 genomes]
rs6698158	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6698460	0.82[AMR][1000 genomes]
rs6703922	1.00[ASN][1000 genomes]
rs72770245	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72770248	1.00[ASN][1000 genomes]
rs7514880	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7533124	1.00[ASN][1000 genomes]
rs7533422	1.00[ASN][1000 genomes]
rs7535614	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7540780	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7552731	1.00[ASN][1000 genomes]
rs7554579	1.00[ASN][1000 genomes]
rs7554877	1.00[ASN][1000 genomes]
rs851777	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9428522	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9428523	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv918034	chr1:241072791-242005532	Weak transcription Enhancers Active TSS Bivalent/Poised TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	32 gene(s)	inside rSNPs	diseases
2	nsv997966	chr1:241100739-242087629	Active TSS Genic enhancers Flanking Active TSS Strong transcription Enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	40 gene(s)	inside rSNPs	diseases
3	nsv1002214	chr1:241458939-242099790	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	37 gene(s)	inside rSNPs	diseases
4	nsv873368	chr1:241533392-242195928	Weak transcription Active TSS Transcr. at gene 5' and 3' Enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	36 gene(s)	inside rSNPs	diseases
5	nsv873372	chr1:241690554-242438293	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases
6	nsv948409	chr1:241830086-242489705	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
7	nsv528015	chr1:241865219-242070731	Active TSS Weak transcription Transcr. at gene 5' and 3' Bivalent Enhancer Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
8	nsv1008300	chr1:241886514-242171611	Enhancers Strong transcription Active TSS Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
9	esv2762521	chr1:241891040-242074222	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
10	nsv873373	chr1:241939069-242027500	Flanking Active TSS Enhancers Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
11	nsv873374	chr1:241975147-242097624	Strong transcription Flanking Active TSS Weak transcription Active TSS Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:241992400-242000800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr1:241998200-242005600	Weak transcription	K562	blood
3	chr1:241998600-242000200	Weak transcription	A549	lung
4	chr1:241999000-241999200	Enhancers	Hela-S3	cervix

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