Variant report

Variant	rs28657820
Chromosome Location	chr8:103263469-103263470
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr8:103260469..103264921-chr8:103267767..103271851,6	MCF-7	breast:
2	chr8:103249647..103255113-chr8:103258766..103269094,16	K562	blood:
3	chr8:103262508..103264248-chr8:103264645..103267058,2	MCF-7	breast:
4	chr8:103258939..103262052-chr8:103262639..103266596,4	MCF-7	breast:
5	chr8:103249978..103252150-chr8:103263315..103266175,4	K562	blood:

Variant related genes	Relation type
ENSG00000048392	Chromatin interaction
ENSG00000253328	Chromatin interaction
ENSG00000246263	Chromatin interaction
ENSG00000272037	Chromatin interaction

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs10103923	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10441502	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12707772	0.83[ASN][1000 genomes]
rs13258207	1.00[ASN][1000 genomes]
rs28498487	1.00[ASN][1000 genomes]
rs28928572	1.00[ASN][1000 genomes]
rs2925791	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2925792	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2978425	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2978426	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3018536	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3018540	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3018542	1.00[AMR][1000 genomes];1.00[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	nsv1020359	chr8:103109921-103318415	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv1033829	chr8:103110057-103525696	Strong transcription Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
3	nsv1021459	chr8:103163436-103401754	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
4	nsv539701	chr8:103163436-103401754	Strong transcription Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
5	nsv1025935	chr8:103199207-103468322	Strong transcription Weak transcription Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
6	nsv1018990	chr8:103207922-103357742	Genic enhancers Strong transcription Flanking Active TSS Weak transcription Enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
7	nsv539702	chr8:103207922-103357742	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
8	nsv1028890	chr8:103207922-103401754	Weak transcription Genic enhancers Active TSS Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
9	nsv891242	chr8:103210971-103282418	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
10	nsv891243	chr8:103219629-103292724	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:117 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:103252000-103268400	Weak transcription	Small Intestine	intestine
2	chr8:103252200-103268800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr8:103252200-103269400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr8:103252200-103273600	Weak transcription	Esophagus	oesophagus
5	chr8:103252200-103273600	Weak transcription	Spleen	Spleen
6	chr8:103252200-103273800	Weak transcription	Lung	lung
7	chr8:103252200-103292800	Weak transcription	Gastric	stomach
8	chr8:103252200-103318800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr8:103252400-103263800	Weak transcription	H1 Cell Line	embryonic stem cell
10	chr8:103252400-103265000	Weak transcription	Fetal Muscle Trunk	muscle
11	chr8:103252400-103265200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
12	chr8:103252400-103266200	Weak transcription	Brain Angular Gyrus	brain
13	chr8:103252400-103266200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
14	chr8:103252400-103266200	Weak transcription	Left Ventricle	heart
15	chr8:103252400-103266200	Weak transcription	HSMMtube	muscle
16	chr8:103252400-103268800	Weak transcription	Fetal Muscle Leg	muscle
17	chr8:103252400-103269200	Weak transcription	Placenta Amnion	Placenta Amnion
18	chr8:103252400-103271800	Weak transcription	Right Ventricle	heart
19	chr8:103252400-103272000	Weak transcription	Fetal Stomach	stomach
20	chr8:103252400-103273800	Weak transcription	Pancreas	Pancrea
21	chr8:103252400-103276000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
22	chr8:103252400-103280200	Weak transcription	Aorta	Aorta
23	chr8:103252400-103292400	Weak transcription	Psoas Muscle	Psoas
24	chr8:103252600-103263600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
25	chr8:103252600-103264000	Weak transcription	Primary T helper cells fromperipheralblood	blood
26	chr8:103252600-103264000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
27	chr8:103252600-103264800	Weak transcription	Brain Hippocampus Middle	brain
28	chr8:103252600-103265200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
29	chr8:103252600-103266200	Weak transcription	Brain Substantia Nigra	brain
30	chr8:103252600-103267800	Weak transcription	Brain Inferior Temporal Lobe	brain
31	chr8:103252600-103268400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
32	chr8:103252600-103268800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
33	chr8:103252600-103268800	Weak transcription	Thymus	Thymus
34	chr8:103252600-103276000	Weak transcription	Stomach Mucosa	stomach
35	chr8:103252600-103280000	Weak transcription	Fetal Brain Male	brain
36	chr8:103252800-103263600	Weak transcription	Colon Smooth Muscle	Colon
37	chr8:103252800-103263800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
38	chr8:103252800-103263800	Weak transcription	Duodenum Smooth Muscle	Duodenum
39	chr8:103252800-103264400	Weak transcription	HUVEC	blood vessel
40	chr8:103252800-103265000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
41	chr8:103252800-103265600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
42	chr8:103252800-103265800	Weak transcription	Fetal Brain Female	brain
43	chr8:103252800-103265800	Weak transcription	Fetal Heart	heart
44	chr8:103252800-103266200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
45	chr8:103252800-103266200	Weak transcription	Colonic Mucosa	Colon
46	chr8:103252800-103266200	Weak transcription	A549	lung
47	chr8:103252800-103266600	Weak transcription	Brain Cingulate Gyrus	brain
48	chr8:103252800-103267400	Weak transcription	Fetal Kidney	kidney
49	chr8:103252800-103268000	Weak transcription	Rectal Smooth Muscle	rectum
50	chr8:103252800-103273600	Weak transcription	Fetal Intestine Small	intestine

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