Variant report

Variant	rs6429308
Chromosome Location	chr1:241935812-241935813
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:241931182..241934991-chr1:241935809..241940192,4	K562	blood:
2	chr1:241802072..241803873-chr1:241935551..241937379,2	MCF-7	breast:
3	chr1:241800150..241802189-chr1:241935454..241937787,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000054277	Chromatin interaction
ENSG00000162843	Chromatin interaction

Extended variants
information (count: 86 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:76)

rs_ID	r²[population]
rs10047251	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10926568	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10926570	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10926572	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10926574	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11587777	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11589447	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12058955	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12060174	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12068835	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12074374	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12075350	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12080931	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12082827	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12088589	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12091522	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12091633	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12092046	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12094877	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12095445	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs13375851	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13375852	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs13375989	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1342867	0.85[EUR][1000 genomes]
rs1635523	0.82[EUR][1000 genomes]
rs4129119	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4658798	0.82[EUR][1000 genomes]
rs56145959	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs57034241	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs57776943	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs58903593	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs61825849	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs61827077	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs61827078	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs61827080	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs61827081	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs61827082	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs61827083	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs61827089	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs61827118	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs61827120	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs61827121	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs61827122	0.81[EUR][1000 genomes]
rs6429298	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6429299	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6429302	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6429309	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6429310	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6429311	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6660576	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6660686	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6663895	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6665240	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6667348	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6667772	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6669947	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6670605	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6671725	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6675602	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6678028	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6685969	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6690241	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6694094	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6698158	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6703922	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs72770245	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7514880	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7533124	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7533422	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7535614	0.82[EUR][1000 genomes]
rs7552731	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7554579	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7554877	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs866455	0.82[EUR][1000 genomes]
rs9428522	0.83[EUR][1000 genomes]
rs9428523	0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 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	esv3342548	chr1:241934354-241936402	Enhancers Weak transcription	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:241931400-241937600	Weak transcription	HUES48 Cell Line	embryonic stem cell
2	chr1:241934000-241937200	Weak transcription	K562	blood

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