Variant report

Variant	rs6767060
Chromosome Location	chr3:135867090-135867091
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:135865547..135867656-chr3:135871463..135873226,2	K562	blood:
2	chr3:135866754..135872495-chr3:135912205..135917619,11	MCF-7	breast:
3	chr3:135866344..135868240-chr3:135873680..135876570,2	K562	blood:

Variant related genes	Relation type
ENSG00000174579	Chromatin interaction
ENSG00000241438	Chromatin interaction

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10048942	0.95[CEU][hapmap]
rs10222451	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10512990	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11720497	1.00[ASN][1000 genomes]
rs12330335	1.00[CEU][hapmap];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12695644	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13068210	1.00[CEU][hapmap];0.94[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13079205	1.00[CEU][hapmap];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs13081671	1.00[CEU][hapmap];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13082532	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13097248	0.81[CEU][hapmap]
rs13321220	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1393786	1.00[CEU][hapmap];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1393787	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1403763	1.00[CEU][hapmap]
rs28519617	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28535121	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28669017	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34864445	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs35320690	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35352346	0.95[CEU][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs35837273	1.00[ASN][1000 genomes]
rs3905668	0.84[EUR][1000 genomes]
rs56398805	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6439629	1.00[CEU][hapmap];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs67109185	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs67589653	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6769762	0.89[CEU][hapmap];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6775778	0.95[CEU][hapmap]
rs6786582	1.00[CEU][hapmap];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6792630	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6793835	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6799056	0.94[CEU][hapmap];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6799320	0.90[CEU][hapmap];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9653930	1.00[CEU][hapmap];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9827662	0.89[CEU][hapmap]
rs9834966	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9848926	1.00[CEU][hapmap];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9870122	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9881400	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869409	chr3:135649101-136164174	Strong transcription Genic enhancers Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	nsv877518	chr3:135861666-135885554	Strong transcription Weak transcription Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:135822800-135870000	Weak transcription	Rectal Mucosa Donor 31	rectum
2	chr3:135823200-135868400	Weak transcription	Rectal Mucosa Donor 29	rectum
3	chr3:135831400-135869400	Weak transcription	Psoas Muscle	Psoas
4	chr3:135831400-135874800	Weak transcription	Fetal Brain Male	brain
5	chr3:135843800-135873800	Weak transcription	Colonic Mucosa	Colon
6	chr3:135845600-135869600	Weak transcription	Fetal Lung	lung
7	chr3:135845600-135880400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr3:135852400-135868000	Weak transcription	Fetal Brain Female	brain
9	chr3:135854200-135870000	Weak transcription	Spleen	Spleen
10	chr3:135854600-135868400	Weak transcription	Thymus	Thymus
11	chr3:135854600-135870000	Weak transcription	Fetal Intestine Small	intestine
12	chr3:135855800-135868000	Weak transcription	K562	blood
13	chr3:135855800-135870800	Weak transcription	Fetal Kidney	kidney
14	chr3:135858200-135869200	Weak transcription	Primary neutrophils fromperipheralblood	blood
15	chr3:135859200-135868000	Weak transcription	Primary B cells from cord blood	blood
16	chr3:135860600-135869400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
17	chr3:135861200-135869800	Weak transcription	Placenta Amnion	Placenta Amnion
18	chr3:135861200-135870000	Weak transcription	Aorta	Aorta
19	chr3:135861400-135868400	Weak transcription	Adipose Nuclei	Adipose
20	chr3:135861400-135870000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
21	chr3:135861600-135869400	Weak transcription	Primary T cells fromperipheralblood	blood
22	chr3:135861600-135873000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
23	chr3:135861800-135867600	Weak transcription	Brain Anterior Caudate	brain
24	chr3:135861800-135868400	Weak transcription	Sigmoid Colon	Sigmoid Colon
25	chr3:135861800-135868600	Weak transcription	Rectal Smooth Muscle	rectum
26	chr3:135861800-135868800	Weak transcription	Cortex derived primary cultured neurospheres	brain
27	chr3:135861800-135869800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
28	chr3:135861800-135869800	Weak transcription	Right Ventricle	heart
29	chr3:135861800-135870000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
30	chr3:135861800-135870000	Weak transcription	Gastric	stomach
31	chr3:135861800-135870000	Weak transcription	Ovary	ovary
32	chr3:135861800-135870800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
33	chr3:135861800-135872200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr3:135861800-135873000	Weak transcription	Stomach Mucosa	stomach
35	chr3:135862000-135867800	Weak transcription	HUES48 Cell Line	embryonic stem cell
36	chr3:135862000-135868400	Weak transcription	Primary T cells from cord blood	blood
37	chr3:135862000-135868400	Weak transcription	NHLF	lung
38	chr3:135862000-135870000	Weak transcription	H1 Cell Line	embryonic stem cell
39	chr3:135862000-135870000	Weak transcription	Pancreas	Pancrea
40	chr3:135862000-135870000	Weak transcription	Right Atrium	heart
41	chr3:135862000-135904800	Weak transcription	Hela-S3	cervix
42	chr3:135862200-135868400	Weak transcription	Duodenum Mucosa	Duodenum
43	chr3:135862200-135868400	Weak transcription	HUVEC	blood vessel
44	chr3:135862600-135868400	Weak transcription	Primary B cells from peripheral blood	blood
45	chr3:135862600-135870000	Weak transcription	H9 Cell Line	embryonic stem cell
46	chr3:135862600-135871400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
47	chr3:135862600-135872200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
48	chr3:135862600-135872200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
49	chr3:135862800-135867400	Weak transcription	Primary T helper cells fromperipheralblood	blood
50	chr3:135862800-135869800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood

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