Variant report

Variant	rs3768235
Chromosome Location	chr1:85733374-85733375
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	chr1:85731843..85735394-chr1:85740314..85743094,4	MCF-7	breast:
2	chr1:85731137..85733599-chr1:85736126..85739884,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000142867	Chromatin interaction
ENSG00000223653	Chromatin interaction

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

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

rs_ID	r²[population]
rs11161557	0.90[TSI][hapmap]
rs11161563	1.00[CEU][hapmap];0.86[CHD][hapmap];0.90[GIH][hapmap];0.84[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11161566	0.92[JPT][hapmap];0.88[ASN][1000 genomes]
rs11161569	0.90[ASN][1000 genomes]
rs11161572	1.00[CEU][hapmap];0.92[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11370	0.90[ASN][1000 genomes]
rs12025860	0.93[ASN][1000 genomes]
rs12025898	0.95[ASN][1000 genomes]
rs12036224	1.00[CHB][hapmap];1.00[CHD][hapmap];0.82[GIH][hapmap];0.92[JPT][hapmap];0.95[ASN][1000 genomes]
rs12039980	0.94[ASN][1000 genomes]
rs12117219	0.80[GIH][hapmap]
rs12133263	1.00[CEU][hapmap];0.92[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12143319	1.00[CHD][hapmap];0.82[GIH][hapmap];0.92[JPT][hapmap];0.93[ASN][1000 genomes]
rs2735595	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs3768234	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55806921	0.83[EUR][1000 genomes]
rs6700749	1.00[CEU][hapmap];0.83[JPT][hapmap];1.00[EUR][1000 genomes]

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	nsv1006994	chr1:85454304-86327679	Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	72 gene(s)	inside rSNPs	diseases
2	esv34165	chr1:85542040-85846249	Flanking Active TSS Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
3	nsv830459	chr1:85589585-85786311	Weak transcription Enhancers Genic enhancers Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	27 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:85725400-85734600	Weak transcription	Small Intestine	intestine
2	chr1:85725400-85741000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr1:85725600-85734600	Weak transcription	Lung	lung
4	chr1:85725600-85737000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
5	chr1:85725800-85733800	Weak transcription	Brain Germinal Matrix	brain
6	chr1:85725800-85734600	Weak transcription	H9 Cell Line	embryonic stem cell
7	chr1:85725800-85734600	Weak transcription	Esophagus	oesophagus
8	chr1:85725800-85734800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
9	chr1:85725800-85739400	Weak transcription	Aorta	Aorta
10	chr1:85726000-85734000	Weak transcription	Brain Cingulate Gyrus	brain
11	chr1:85726000-85734000	Weak transcription	Ovary	ovary
12	chr1:85726000-85734200	Weak transcription	Brain Anterior Caudate	brain
13	chr1:85726000-85734400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
14	chr1:85726000-85734400	Weak transcription	Fetal Heart	heart
15	chr1:85726000-85734400	Weak transcription	HepG2	liver
16	chr1:85726000-85734600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
17	chr1:85726000-85734600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
18	chr1:85726000-85734600	Weak transcription	Fetal Brain Male	brain
19	chr1:85726000-85734600	Weak transcription	Right Ventricle	heart
20	chr1:85726000-85734800	Weak transcription	Pancreatic Islets	Pancreatic Islet
21	chr1:85726000-85741000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
22	chr1:85726000-85741400	Weak transcription	Gastric	stomach
23	chr1:85726200-85734600	Weak transcription	Fetal Brain Female	brain
24	chr1:85726200-85735200	Weak transcription	Brain Substantia Nigra	brain
25	chr1:85726200-85739800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
26	chr1:85726600-85734600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
27	chr1:85726800-85733400	Weak transcription	Cortex derived primary cultured neurospheres	brain
28	chr1:85727200-85741400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
29	chr1:85727800-85737400	Strong transcription	Primary B cells from peripheral blood	blood
30	chr1:85728000-85737400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
31	chr1:85728200-85739400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
32	chr1:85728400-85738400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
33	chr1:85728600-85734600	Weak transcription	Pancreas	Pancrea
34	chr1:85728600-85738800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
35	chr1:85728600-85739600	Strong transcription	Fetal Muscle Trunk	muscle
36	chr1:85728600-85739600	Strong transcription	HSMM	muscle
37	chr1:85728800-85734600	Strong transcription	Rectal Mucosa Donor 29	rectum
38	chr1:85728800-85739000	Strong transcription	HUES64 Cell Line	embryonic stem cell
39	chr1:85728800-85739000	Strong transcription	Monocytes-CD14+_RO01746	blood
40	chr1:85728800-85739600	Strong transcription	Primary hematopoietic stem cells	blood
41	chr1:85729000-85735200	Strong transcription	Primary T helper cells PMA-I stimulated	--
42	chr1:85729000-85739200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
43	chr1:85729200-85734600	Strong transcription	Dnd41	blood
44	chr1:85729200-85737800	Strong transcription	Placenta	Placenta
45	chr1:85729200-85738000	Strong transcription	Fetal Thymus	thymus
46	chr1:85729200-85738400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
47	chr1:85729200-85738800	Strong transcription	Primary T cells fromperipheralblood	blood
48	chr1:85729200-85739400	Strong transcription	HUES48 Cell Line	embryonic stem cell
49	chr1:85729200-85739600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
50	chr1:85729400-85738000	Strong transcription	Primary B cells from cord blood	blood

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