Variant report

Variant	rs6675112
Chromosome Location	chr1:220879533-220879534
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	chr1:220862639..220865186-chr1:220879178..220882320,3	K562	blood:

Variant related genes	Relation type
ENSG00000162817	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs17007981	0.82[JPT][hapmap]
rs17008285	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17008287	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17008290	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17008302	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17008319	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17008341	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1874119	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1874120	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3737297	0.85[JPT][hapmap]
rs6663028	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6675203	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6677780	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6678186	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6685109	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6686013	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7533858	1.00[JPT][hapmap]

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	nsv468194	chr1:220845610-220885612	Bivalent Enhancer Strong transcription Weak transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
2	nsv549227	chr1:220845610-220885612	Flanking Active TSS Bivalent Enhancer Weak transcription Enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
3	esv2754270	chr1:220850116-220929155	Active TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:220866600-220879600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
2	chr1:220873800-220880000	Weak transcription	Rectal Mucosa Donor 31	rectum
3	chr1:220876600-220881600	Weak transcription	Liver	Liver
4	chr1:220876800-220879600	Weak transcription	H1 Cell Line	embryonic stem cell
5	chr1:220877200-220879800	Weak transcription	Small Intestine	intestine
6	chr1:220877400-220880200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr1:220878200-220880000	Enhancers	Fetal Heart	heart
8	chr1:220878200-220880000	Enhancers	Left Ventricle	heart
9	chr1:220878200-220883800	Enhancers	Fetal Intestine Small	intestine
10	chr1:220878400-220879600	Enhancers	Spleen	Spleen
11	chr1:220878400-220880400	Enhancers	Gastric	stomach
12	chr1:220878400-220885200	Enhancers	Duodenum Mucosa	Duodenum
13	chr1:220878400-220886000	Enhancers	HepG2	liver
14	chr1:220878600-220880000	Enhancers	Right Atrium	heart
15	chr1:220878800-220880000	Enhancers	Right Ventricle	heart
16	chr1:220878800-220880200	Enhancers	Fetal Intestine Large	intestine
17	chr1:220878800-220885200	Enhancers	Pancreas	Pancrea
18	chr1:220879200-220879600	Enhancers	Adipose Nuclei	Adipose
19	chr1:220879200-220880200	Enhancers	Placenta	Placenta
20	chr1:220879200-220880600	Enhancers	Ovary	ovary
21	chr1:220879400-220879600	Enhancers	ES-I3 Cell Line	embryonic stem cell
22	chr1:220879400-220879600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
23	chr1:220879400-220879800	Enhancers	HUES6 Cell Line	embryonic stem cell
24	chr1:220879400-220880800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
25	chr1:220879400-220882600	Weak transcription	Stomach Mucosa	stomach
26	chr1:220879400-220884400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland

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