Variant report

Variant	rs9296202
Chromosome Location	chr6:36880801-36880802
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:11)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:11 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:36878376..36882517-chr6:36952548..36956029,4	MCF-7	breast:
2	chr6:36852227..36855110-chr6:36880168..36882396,2	K562	blood:
3	chr6:36874669..36878220-chr6:36879029..36882017,3	MCF-7	breast:
4	chr6:36880047..36886049-chr6:36952384..36956049,12	MCF-7	breast:
5	chr6:36879267..36882648-chr6:36885620..36888336,3	K562	blood:
6	chr6:36875559..36878627-chr6:36879795..36881810,3	K562	blood:
7	chr6:36841055..36843830-chr6:36880674..36884413,4	MCF-7	breast:
8	chr6:36853041..36855950-chr6:36880214..36882571,4	MCF-7	breast:
9	chr6:36838232..36840562-chr6:36879914..36882282,2	MCF-7	breast:
10	chr6:36841357..36843245-chr6:36878241..36882187,3	K562	blood:
11	chr6:36856213..36857757-chr6:36880453..36883073,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000137409	Chromatin interaction
ENSG00000137168	Chromatin interaction
ENSG00000198663	Chromatin interaction

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs10080913	1.00[EUR][1000 genomes]
rs1405068	1.00[EUR][1000 genomes]
rs57023725	1.00[EUR][1000 genomes]
rs57275916	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57680472	1.00[EUR][1000 genomes]
rs58065571	1.00[AMR][1000 genomes]
rs58376164	1.00[EUR][1000 genomes]
rs58821443	1.00[AMR][1000 genomes]
rs59341304	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs61140519	1.00[EUR][1000 genomes]
rs6900666	0.83[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6927474	1.00[EUR][1000 genomes]
rs6931297	0.86[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6931465	0.86[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6932579	0.86[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6932672	1.00[AMR][1000 genomes]
rs6932789	1.00[EUR][1000 genomes]
rs73416263	1.00[AMR][1000 genomes]
rs73416275	1.00[AMR][1000 genomes]
rs73420361	1.00[EUR][1000 genomes]
rs73420362	1.00[EUR][1000 genomes]
rs73420393	1.00[EUR][1000 genomes]
rs73732090	1.00[EUR][1000 genomes]
rs73732102	1.00[EUR][1000 genomes]
rs7752720	1.00[EUR][1000 genomes]
rs9462242	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9462243	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9462244	1.00[EUR][1000 genomes]
rs9462245	1.00[EUR][1000 genomes]
rs9462246	1.00[EUR][1000 genomes]
rs9462247	1.00[EUR][1000 genomes]
rs9470433	1.00[EUR][1000 genomes]
rs9470435	1.00[EUR][1000 genomes]
rs9470436	1.00[EUR][1000 genomes]
rs9470437	1.00[EUR][1000 genomes]
rs9470438	1.00[EUR][1000 genomes]
rs9470446	1.00[EUR][1000 genomes]
rs9688391	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9688402	0.83[AFR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1023171	chr6:36686935-36880899	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
2	nsv538202	chr6:36686935-36880899	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
3	nsv1030015	chr6:36818510-37104446	Active TSS Enhancers Flanking Active TSS Weak transcription Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
4	nsv916833	chr6:36826524-37029833	Enhancers Active TSS Strong transcription Bivalent Enhancer Flanking Active TSS Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	38 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	chr6:36854200-36881000	Weak transcription	Gastric	stomach
2	chr6:36854200-36887400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr6:36854400-36893000	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr6:36854800-36881000	Weak transcription	A549	lung
5	chr6:36854800-36882000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr6:36854800-36884600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr6:36855400-36881000	Weak transcription	Small Intestine	intestine
8	chr6:36864600-36881200	Strong transcription	Fetal Intestine Small	intestine
9	chr6:36866200-36896400	Strong transcription	Primary neutrophils fromperipheralblood	blood
10	chr6:36866800-36881600	Strong transcription	Fetal Intestine Large	intestine
11	chr6:36867000-36897000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr6:36868600-36882000	Weak transcription	HUES48 Cell Line	embryonic stem cell
13	chr6:36869800-36881400	Strong transcription	HepG2	liver
14	chr6:36870600-36882000	Weak transcription	HUES6 Cell Line	embryonic stem cell
15	chr6:36870600-36882000	Weak transcription	Fetal Kidney	kidney
16	chr6:36870800-36889400	Weak transcription	HUES64 Cell Line	embryonic stem cell
17	chr6:36871000-36888400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
18	chr6:36871200-36882000	Weak transcription	Hela-S3	cervix
19	chr6:36873200-36881000	Weak transcription	Colonic Mucosa	Colon
20	chr6:36874000-36882000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
21	chr6:36875800-36881000	Weak transcription	Esophagus	oesophagus
22	chr6:36875800-36881000	Weak transcription	Stomach Mucosa	stomach
23	chr6:36876000-36885000	Strong transcription	Fetal Stomach	stomach
24	chr6:36876200-36885800	Weak transcription	Psoas Muscle	Psoas
25	chr6:36876800-36881200	Weak transcription	Brain Inferior Temporal Lobe	brain
26	chr6:36876800-36881200	Weak transcription	Skeletal Muscle Male	skeletal muscle
27	chr6:36876800-36884200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr6:36876800-36885000	Weak transcription	Ovary	ovary
29	chr6:36876800-36885200	Weak transcription	Fetal Heart	heart
30	chr6:36877000-36884400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
31	chr6:36877800-36896000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
32	chr6:36879200-36881000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
33	chr6:36879400-36881200	Flanking Active TSS	Dnd41	blood
34	chr6:36879400-36881400	Genic enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
35	chr6:36879400-36881400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
36	chr6:36879400-36881400	Genic enhancers	HSMM	muscle
37	chr6:36879400-36881600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
38	chr6:36879400-36881600	Genic enhancers	Brain Cingulate Gyrus	brain
39	chr6:36879400-36882000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
40	chr6:36879400-36882200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
41	chr6:36879400-36882400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
42	chr6:36879400-36882800	Enhancers	NHEK	skin
43	chr6:36879400-36883000	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
44	chr6:36879400-36883200	Strong transcription	Fetal Muscle Leg	muscle
45	chr6:36879400-36883400	Strong transcription	Fetal Lung	lung
46	chr6:36879400-36884400	Strong transcription	Stomach Smooth Muscle	stomach
47	chr6:36879400-36894000	Strong transcription	Fetal Brain Female	brain
48	chr6:36879600-36881200	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
49	chr6:36879600-36881200	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
50	chr6:36879600-36881200	Genic enhancers	Brain Hippocampus Middle	brain

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