Variant report

Variant	rs927127
Chromosome Location	chr6:110010672-110010673
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	chr6:110009150..110010856-chr6:110010893..110012924,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000112367	Chromatin interaction
ENSG00000155085	Chromatin interaction

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10080533	1.00[EUR][1000 genomes]
rs10434873	1.00[EUR][1000 genomes]
rs11505167	1.00[EUR][1000 genomes]
rs1303981	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17070656	1.00[EUR][1000 genomes]
rs17070874	0.82[AMR][1000 genomes]
rs2076929	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2295835	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs3823235	0.95[AMR][1000 genomes];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs60640103	1.00[EUR][1000 genomes]
rs6568587	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6900091	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6917383	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6917713	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6925005	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6927075	0.90[EUR][1000 genomes]
rs6932271	1.00[EUR][1000 genomes]
rs73535341	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs7356790	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7740192	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7742066	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs7743159	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7749605	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7753555	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7765916	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7767805	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7768577	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9320289	1.00[EUR][1000 genomes]
rs9320292	1.00[EUR][1000 genomes]
rs9372225	0.82[AMR][1000 genomes]
rs9374106	0.89[EUR][1000 genomes]
rs9386807	0.89[EUR][1000 genomes]
rs9386810	1.00[EUR][1000 genomes]
rs9386817	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9386833	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9386835	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs9398205	1.00[EUR][1000 genomes]
rs9398214	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs9398215	0.91[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs9400286	0.89[EUR][1000 genomes]
rs9400299	0.89[EUR][1000 genomes]
rs9480969	1.00[EUR][1000 genomes]
rs9480990	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9487186	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9487193	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949475	chr6:109907936-110160501	Weak transcription Enhancers ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv933105	chr6:109933270-110064342	ZNF genes & repeats Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Enhancers Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
3	nsv817322	chr6:109933272-110070574	Strong transcription Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
4	nsv830769	chr6:109944334-110078120	Enhancers Strong transcription Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
5	nsv604485	chr6:109959269-110054486	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:56 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:109980600-110011200	Weak transcription	Fetal Thymus	thymus
2	chr6:109989400-110011400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
3	chr6:109992000-110011200	Weak transcription	Primary T helper cells fromperipheralblood	blood
4	chr6:109992400-110011400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
5	chr6:109998400-110010800	Weak transcription	Primary B cells from cord blood	blood
6	chr6:110000400-110011400	Weak transcription	Left Ventricle	heart
7	chr6:110000600-110010800	Weak transcription	Stomach Smooth Muscle	stomach
8	chr6:110001000-110011400	Weak transcription	Skeletal Muscle Female	skeletal muscle
9	chr6:110001200-110011600	Weak transcription	Spleen	Spleen
10	chr6:110007200-110011000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr6:110007200-110011400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr6:110008000-110010800	Weak transcription	Colon Smooth Muscle	Colon
13	chr6:110008400-110011200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
14	chr6:110008400-110011200	Weak transcription	Psoas Muscle	Psoas
15	chr6:110008600-110011200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
16	chr6:110008600-110011200	Weak transcription	Fetal Muscle Leg	muscle
17	chr6:110008600-110011400	Weak transcription	Brain Angular Gyrus	brain
18	chr6:110008800-110010800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
19	chr6:110008800-110011200	Weak transcription	Brain Anterior Caudate	brain
20	chr6:110009000-110011000	Weak transcription	Hela-S3	cervix
21	chr6:110009000-110011200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
22	chr6:110009000-110011400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
23	chr6:110009000-110011400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
24	chr6:110009000-110011400	Weak transcription	Fetal Stomach	stomach
25	chr6:110009000-110011400	Weak transcription	Pancreas	Pancrea
26	chr6:110009200-110011200	Weak transcription	Monocytes-CD14+_RO01746	blood
27	chr6:110009200-110011400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr6:110009200-110011400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr6:110009200-110011400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr6:110009200-110011400	Weak transcription	Primary monocytes fromperipheralblood	blood
31	chr6:110009200-110011400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
32	chr6:110009200-110011400	Weak transcription	HSMMtube	muscle
33	chr6:110009200-110011400	Weak transcription	HUVEC	blood vessel
34	chr6:110009200-110011400	Weak transcription	NHDF-Ad	bronchial
35	chr6:110009400-110011200	Weak transcription	NHLF	lung
36	chr6:110009400-110011400	Weak transcription	Muscle Satellite Cultured Cells	--
37	chr6:110009400-110011400	Weak transcription	Osteobl	bone
38	chr6:110009800-110011200	Weak transcription	HMEC	breast
39	chr6:110010000-110011400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
40	chr6:110010400-110011000	Genic enhancers	Primary T cells from cord blood	blood
41	chr6:110010400-110011000	Enhancers	Dnd41	blood
42	chr6:110010400-110011400	Weak transcription	Aorta	Aorta
43	chr6:110010600-110010800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
44	chr6:110010600-110010800	Enhancers	Esophagus	oesophagus
45	chr6:110010600-110010800	Enhancers	Thymus	Thymus
46	chr6:110010600-110011000	Enhancers	HUES64 Cell Line	embryonic stem cell
47	chr6:110010600-110011000	Enhancers	Primary T helper cells PMA-I stimulated	--
48	chr6:110010600-110011000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
49	chr6:110010600-110011000	Enhancers	Brain Germinal Matrix	brain
50	chr6:110010600-110011200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links