Variant report

Variant	rs3800371
Chromosome Location	chr6:35655302-35655303
allele	A/G
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:16)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:16 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:35649127..35664209-chr6:35693738..35704622,45	K562	blood:
2	chr6:35655179..35657311-chr6:35699143..35705251,6	MCF-7	breast:
3	chr6:35654589..35656249-chr6:35685237..35687965,2	K562	blood:
4	chr6:35630752..35636758-chr6:35653263..35658179,9	K562	blood:
5	chr6:35654784..35658036-chr6:35702203..35706321,5	MCF-7	breast:
6	chr6:35511219..35512849-chr6:35653917..35656279,2	MCF-7	breast:
7	chr6:35654560..35658324-chr6:35694292..35699560,11	MCF-7	breast:
8	chr6:35653875..35657933-chr6:35692950..35698749,12	MCF-7	breast:
9	chr6:35464601..35467910-chr6:35655207..35659461,3	K562	blood:
10	chr6:35652411..35655860-chr6:35676319..35677896,3	K562	blood:
11	chr6:35463571..35465690-chr6:35654249..35656915,2	K562	blood:
12	chr6:35551819..35553896-chr6:35653247..35655649,2	MCF-7	breast:
13	chr6:35652995..35655572-chr6:35676396..35678157,2	K562	blood:
14	chr6:35649031..35660636-chr6:35692310..35701686,35	K562	blood:
15	chr6:35654156..35657013-chr6:35704693..35707749,4	K562	blood:
16	chr6:35590466..35592816-chr6:35654896..35656515,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000232909	Chromatin interaction
ENSG00000157343	Chromatin interaction
ENSG00000096060	Chromatin interaction
ENSG00000007866	Chromatin interaction
ENSG00000228559	Chromatin interaction
ENSG00000265527	Chromatin interaction

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs16877540	1.00[JPT][hapmap]
rs2294807	1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:14 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758048	chr6:35463741-35806504	Genic enhancers Weak transcription Active TSS Bivalent Enhancer Enhancers Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
2	esv2759420	chr6:35463741-35806504	Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
3	nsv602924	chr6:35505311-35750299	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
4	nsv885801	chr6:35537406-35671651	Enhancers Active TSS Strong transcription Flanking Active TSS Weak transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
5	esv3430300	chr6:35549151-35959004	Flanking Active TSS Strong transcription Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
6	nsv5258	chr6:35601724-35658344	Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	15 gene(s)	inside rSNPs	diseases
7	nsv821646	chr6:35604428-35802594	Enhancers Weak transcription Active TSS Strong transcription Bivalent Enhancer Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
8	nsv885802	chr6:35621781-35787417	Active TSS Enhancers Flanking Active TSS Weak transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	34 gene(s)	inside rSNPs	diseases
9	nsv885803	chr6:35621781-35805133	Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Weak transcription Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
10	nsv885804	chr6:35621781-35809776	Active TSS Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
11	esv1848709	chr6:35626500-35655890	Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Enhancers Weak transcription Genic enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA	8 gene(s)	inside rSNPs	diseases
12	esv1851034	chr6:35626500-35656400	Active TSS Bivalent/Poised TSS Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA	13 gene(s)	inside rSNPs	diseases
13	esv1840748	chr6:35629669-35656400	Enhancers Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Strong transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region miRNA	13 gene(s)	inside rSNPs	diseases
14	nsv428143	chr6:35637083-35806504	Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Active TSS Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 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	chr6:35645800-35655400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr6:35646800-35655400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr6:35646800-35655400	Weak transcription	Gastric	stomach
4	chr6:35647000-35655400	Weak transcription	Spleen	Spleen
5	chr6:35652200-35655400	Weak transcription	Lung	lung
6	chr6:35652200-35657000	Active TSS	Psoas Muscle	Psoas
7	chr6:35652800-35655400	Active TSS	Thymus	Thymus
8	chr6:35652800-35655600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr6:35652800-35656400	Active TSS	Right Atrium	heart
10	chr6:35652800-35656800	Active TSS	Pancreatic Islets	Pancreatic Islet
11	chr6:35652800-35656800	Active TSS	Ovary	ovary
12	chr6:35652800-35656800	Active TSS	Right Ventricle	heart
13	chr6:35652800-35657000	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr6:35653000-35655400	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr6:35653400-35655800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
16	chr6:35653400-35656800	Active TSS	Muscle Satellite Cultured Cells	--
17	chr6:35653400-35656800	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr6:35653400-35656800	Active TSS	Stomach Smooth Muscle	stomach
19	chr6:35653400-35657000	Active TSS	NHEK	skin
20	chr6:35653600-35655400	Weak transcription	Esophagus	oesophagus
21	chr6:35653600-35655800	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr6:35653600-35656800	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
23	chr6:35653600-35656800	Active TSS	Primary T helper cells PMA-I stimulated	--
24	chr6:35653600-35656800	Active TSS	Primary T killer naive cells fromperipheralblood	blood
25	chr6:35653600-35656800	Active TSS	HMEC	breast
26	chr6:35653800-35656800	Active TSS	Primary T helper naive cells fromperipheralblood	blood
27	chr6:35653800-35656800	Active TSS	Liver	Liver
28	chr6:35653800-35656800	Active TSS	GM12878-XiMat	blood
29	chr6:35653800-35656800	Active TSS	K562	blood
30	chr6:35653800-35657000	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
31	chr6:35653800-35657000	Active TSS	Brain Substantia Nigra	brain
32	chr6:35653800-35657000	Active TSS	Rectal Mucosa Donor 31	rectum
33	chr6:35654000-35655600	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
34	chr6:35654000-35657000	Active TSS	Primary T helper cells fromperipheralblood	blood
35	chr6:35654000-35657000	Active TSS	Brain Anterior Caudate	brain
36	chr6:35654000-35657000	Active TSS	Duodenum Smooth Muscle	Duodenum
37	chr6:35654200-35655400	Active TSS	Brain Inferior Temporal Lobe	brain
38	chr6:35654200-35655400	Active TSS	Skeletal Muscle Female	skeletal muscle
39	chr6:35654200-35656600	Active TSS	Primary T cells fromperipheralblood	blood
40	chr6:35654200-35656800	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
41	chr6:35654200-35656800	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
42	chr6:35654200-35657000	Active TSS	Duodenum Mucosa	Duodenum
43	chr6:35654400-35655400	Enhancers	Placenta Amnion	Placenta Amnion
44	chr6:35654400-35655800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
45	chr6:35654400-35656000	Flanking Active TSS	Primary B cells from cord blood	blood
46	chr6:35654400-35656000	Active TSS	Fetal Heart	heart
47	chr6:35654400-35656400	Active TSS	Colonic Mucosa	Colon
48	chr6:35654400-35656600	Active TSS	Primary T helper memory cells from peripheral blood 2	blood
49	chr6:35654400-35656800	Active TSS	Aorta	Aorta
50	chr6:35654400-35656800	Active TSS	Fetal Thymus	thymus

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links