Variant report

Variant	rs6934773
Chromosome Location	chr6:11392676-11392677
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:11229608..11234180-chr6:11390847..11394778,6	MCF-7	breast:
2	chr6:11391901..11394391-chr6:11432829..11435706,3	MCF-7	breast:
3	chr6:11343010..11348187-chr6:11388549..11393263,7	MCF-7	breast:
4	chr6:11390303..11392933-chr6:11494450..11496978,4	MCF-7	breast:
5	chr6:11383728..11385611-chr6:11391826..11394332,2	K562	blood:
6	chr6:11229965..11235177-chr6:11385041..11393111,14	MCF-7	breast:
7	chr6:11387321..11394874-chr6:11409302..11416244,8	MCF-7	breast:

Variant related genes	Relation type
ENSG00000111859	Chromatin interaction

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs2179178	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs3798752	0.96[CEU][hapmap];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4403261	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs5019594	1.00[CEU][hapmap];0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6918440	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6932496	0.81[ASN][1000 genomes]
rs9296000	0.96[CEU][hapmap];0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9461714	0.81[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs9469034	0.81[AMR][1000 genomes];0.82[ASN][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	nsv1021078	chr6:10819083-11558560	Enhancers Strong transcription Active TSS Flanking Active TSS Weak transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
2	nsv538135	chr6:10819083-11558560	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
3	nsv432848	chr6:11371614-11560114	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:11383600-11393000	Weak transcription	Small Intestine	intestine
2	chr6:11385800-11393400	Weak transcription	Aorta	Aorta
3	chr6:11386000-11393600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr6:11387200-11392800	Weak transcription	Stomach Mucosa	stomach
5	chr6:11389200-11394800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
6	chr6:11389400-11394800	Enhancers	HUVEC	blood vessel
7	chr6:11389800-11393000	Weak transcription	Adipose Nuclei	Adipose
8	chr6:11390400-11393200	Weak transcription	Primary B cells from peripheral blood	blood
9	chr6:11390800-11393000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
10	chr6:11390800-11393000	Weak transcription	Fetal Lung	lung
11	chr6:11390800-11393000	Weak transcription	Spleen	Spleen
12	chr6:11390800-11393000	Weak transcription	NHEK	skin
13	chr6:11390800-11393200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr6:11390800-11393400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr6:11391000-11393000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
16	chr6:11391000-11393400	Weak transcription	HMEC	breast
17	chr6:11391000-11394000	Weak transcription	Primary hematopoietic stem cells	blood
18	chr6:11392000-11393000	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
19	chr6:11392200-11394000	Flanking Active TSS	HepG2	liver
20	chr6:11392400-11392800	Enhancers	Monocytes-CD14+_RO01746	blood
21	chr6:11392400-11393000	Enhancers	Hela-S3	cervix
22	chr6:11392400-11393600	Enhancers	Lung	lung
23	chr6:11392400-11393800	Enhancers	Fetal Heart	heart
24	chr6:11392400-11393800	Enhancers	Left Ventricle	heart
25	chr6:11392400-11393800	Enhancers	Sigmoid Colon	Sigmoid Colon
26	chr6:11392400-11394000	Enhancers	Fetal Intestine Small	intestine
27	chr6:11392400-11394000	Enhancers	Right Atrium	heart
28	chr6:11392400-11394400	Enhancers	Fetal Intestine Large	intestine
29	chr6:11392400-11394800	Enhancers	Placenta	Placenta
30	chr6:11392400-11395000	Enhancers	Primary monocytes fromperipheralblood	blood
31	chr6:11392400-11396000	Enhancers	Placenta Amnion	Placenta Amnion
32	chr6:11392600-11393200	Enhancers	Primary neutrophils fromperipheralblood	blood
33	chr6:11392600-11393200	Enhancers	Duodenum Mucosa	Duodenum
34	chr6:11392600-11393800	Enhancers	Liver	Liver
35	chr6:11392600-11394200	Enhancers	Rectal Mucosa Donor 31	rectum
36	chr6:11392600-11395200	Enhancers	Fetal Adrenal Gland	Adrenal Gland

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links