Variant report

Variant	rs6921990
Chromosome Location	chr6:3990789-3990790
allele	A/C
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	chr6:3942356..3944473-chr6:3989662..3991254,2	MCF-7	breast:
2	chr6:3748250..3749119-chr6:3990628..3991635,6	MCF-7	breast:
3	chr6:3849386..3850175-chr6:3990775..3991654,3	MCF-7	breast:
4	chr6:3744280..3746024-chr6:3989220..3991017,2	MCF-7	breast:
5	chr6:3990717..3994898-chr6:4017557..4021818,5	MCF-7	breast:
6	chr6:3848965..3850055-chr6:3990764..3991325,3	K562	blood:
7	chr6:3741878..3742970-chr6:3990744..3991611,4	MCF-7	breast:
8	chr6:3849415..3850026-chr6:3990782..3991740,2	MCF-7	breast:
9	chr6:3981805..3984986-chr6:3987374..3990982,3	K562	blood:
10	chr6:3985295..3987675-chr6:3989539..3991361,2	MCF-7	breast:
11	chr6:3988050..3991356-chr6:3993338..3995417,3	K562	blood:

No data

Variant related genes	Relation type
ENSG00000145965	Chromatin interaction
ENSG00000112739	Chromatin interaction
ENSG00000272248	Chromatin interaction
ENSG00000145945	Chromatin interaction
ENSG00000230648	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs10458166	1.00[ASN][1000 genomes]
rs12192379	1.00[ASN][1000 genomes]
rs12210454	1.00[ASN][1000 genomes]
rs9328212	1.00[ASN][1000 genomes]
rs9392027	1.00[ASN][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	nsv532020	chr6:3417520-4140257	Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Flanking Bivalent TSS/Enh Weak transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
2	nsv1022968	chr6:3862744-4272502	Enhancers Genic enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3' Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
3	nsv538106	chr6:3862744-4272502	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
4	esv1800199	chr6:3986611-4014872	Enhancers Weak transcription Strong transcription Genic enhancers Active TSS ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:92 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:3976400-3990800	Weak transcription	Stomach Smooth Muscle	stomach
2	chr6:3978600-3991000	Weak transcription	Primary T helper cells fromperipheralblood	blood
3	chr6:3978600-3991000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
4	chr6:3978800-3991000	Weak transcription	Primary B cells from peripheral blood	blood
5	chr6:3978800-3991000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
6	chr6:3978800-3991000	Weak transcription	Primary T helper cells PMA-I stimulated	--
7	chr6:3979000-3990800	Weak transcription	HSMM	muscle
8	chr6:3979000-3991000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
9	chr6:3979000-4003200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
10	chr6:3979200-3991000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
11	chr6:3979400-3990800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
12	chr6:3980600-4003600	Weak transcription	Primary B cells from cord blood	blood
13	chr6:3980800-3990800	Weak transcription	Duodenum Smooth Muscle	Duodenum
14	chr6:3983000-3991000	Weak transcription	Primary T cells fromperipheralblood	blood
15	chr6:3983800-3990800	Weak transcription	Ovary	ovary
16	chr6:3985400-4011000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
17	chr6:3985800-3990800	Weak transcription	Rectal Smooth Muscle	rectum
18	chr6:3986800-3990800	Weak transcription	Esophagus	oesophagus
19	chr6:3987000-3991000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr6:3987000-3991000	Weak transcription	Fetal Thymus	thymus
21	chr6:3987400-3990800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr6:3987600-3990800	Weak transcription	Aorta	Aorta
23	chr6:3987600-3990800	Weak transcription	Psoas Muscle	Psoas
24	chr6:3987600-3991000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr6:3987600-3991000	Weak transcription	Fetal Intestine Large	intestine
26	chr6:3987600-3991000	Weak transcription	Rectal Mucosa Donor 31	rectum
27	chr6:3987600-3991000	Weak transcription	Stomach Mucosa	stomach
28	chr6:3987800-3990800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
29	chr6:3987800-3990800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
30	chr6:3987800-3990800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
31	chr6:3987800-3990800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
32	chr6:3987800-3990800	Weak transcription	Fetal Intestine Small	intestine
33	chr6:3987800-3990800	Weak transcription	Fetal Lung	lung
34	chr6:3987800-3990800	Weak transcription	Left Ventricle	heart
35	chr6:3987800-3990800	Weak transcription	Pancreas	Pancrea
36	chr6:3987800-3990800	Weak transcription	Skeletal Muscle Male	skeletal muscle
37	chr6:3987800-3990800	Weak transcription	Skeletal Muscle Female	skeletal muscle
38	chr6:3987800-3990800	Weak transcription	NHDF-Ad	bronchial
39	chr6:3987800-3991000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
40	chr6:3987800-3991000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
41	chr6:3987800-3991000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
42	chr6:3987800-3991000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
43	chr6:3987800-3991000	Weak transcription	Fetal Kidney	kidney
44	chr6:3987800-3991000	Weak transcription	Fetal Stomach	stomach
45	chr6:3987800-3991000	Weak transcription	Lung	lung
46	chr6:3987800-3991000	Weak transcription	Thymus	Thymus
47	chr6:3987800-3991000	Weak transcription	HepG2	liver
48	chr6:3987800-3991000	Weak transcription	NH-A	brain
49	chr6:3987800-3993200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
50	chr6:3987800-3997200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links