Variant report

Variant	rs210620
Chromosome Location	chr6:117865275-117865276
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	MYC	chr6:117865189-117865462	MCF10A-Er-Src	breast:	n/a	chr6:117865369-117865379 chr6:117865368-117865383 chr6:117865370-117865380

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:117802655..117804398-chr6:117864844..117866459,3	MCF-7	breast:
2	chr6:117857865..117860063-chr6:117863787..117868027,4	K562	blood:

Variant related genes	Relation type
DCBLD1	TF binding region
ENSG00000164465	Chromatin interaction

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs10457315	0.82[CEU][hapmap]
rs210617	0.82[CEU][hapmap]
rs210618	0.82[ASN][1000 genomes]
rs210619	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs210621	0.81[ASN][1000 genomes]
rs210625	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2134087	0.81[ASN][1000 genomes]
rs389663	0.95[CHB][hapmap];0.86[JPT][hapmap];0.91[ASN][1000 genomes]
rs8088	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9320608	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9320609	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9489217	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532050	chr6:117528154-118203005	ZNF genes & repeats Enhancers Bivalent Enhancer Active TSS Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:86 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:117819800-117868800	Weak transcription	Spleen	Spleen
2	chr6:117821600-117868800	Weak transcription	Rectal Smooth Muscle	rectum
3	chr6:117823200-117868800	Weak transcription	Stomach Smooth Muscle	stomach
4	chr6:117823200-117869600	Weak transcription	Small Intestine	intestine
5	chr6:117828000-117866200	Weak transcription	Esophagus	oesophagus
6	chr6:117835200-117868800	Weak transcription	Colonic Mucosa	Colon
7	chr6:117835400-117868800	Weak transcription	Psoas Muscle	Psoas
8	chr6:117836600-117869600	Weak transcription	Stomach Mucosa	stomach
9	chr6:117838600-117869000	Weak transcription	Ovary	ovary
10	chr6:117842800-117866200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr6:117845200-117866200	Weak transcription	Skeletal Muscle Male	skeletal muscle
12	chr6:117845800-117868800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
13	chr6:117846800-117869600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
14	chr6:117851800-117868800	Weak transcription	Right Ventricle	heart
15	chr6:117852800-117867800	Weak transcription	Fetal Muscle Trunk	muscle
16	chr6:117853200-117868600	Strong transcription	Muscle Satellite Cultured Cells	--
17	chr6:117853200-117868600	Strong transcription	HSMM	muscle
18	chr6:117853400-117868800	Weak transcription	Brain Hippocampus Middle	brain
19	chr6:117853400-117868800	Weak transcription	NHDF-Ad	bronchial
20	chr6:117853600-117868600	Strong transcription	Osteobl	bone
21	chr6:117853600-117868800	Weak transcription	Brain Cingulate Gyrus	brain
22	chr6:117854200-117868800	Weak transcription	Brain Inferior Temporal Lobe	brain
23	chr6:117854400-117868800	Weak transcription	Brain Angular Gyrus	brain
24	chr6:117855000-117868200	Weak transcription	Monocytes-CD14+_RO01746	blood
25	chr6:117857000-117869200	Weak transcription	Fetal Kidney	kidney
26	chr6:117857800-117867600	Weak transcription	Hela-S3	cervix
27	chr6:117857800-117868600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
28	chr6:117858000-117867600	Weak transcription	HSMMtube	muscle
29	chr6:117858000-117868800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
30	chr6:117858000-117869200	Weak transcription	Placenta	Placenta
31	chr6:117858200-117866000	Strong transcription	NH-A	brain
32	chr6:117858200-117870400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
33	chr6:117858400-117865800	Weak transcription	Aorta	Aorta
34	chr6:117859000-117866200	Strong transcription	HUVEC	blood vessel
35	chr6:117859000-117868800	Strong transcription	Duodenum Mucosa	Duodenum
36	chr6:117859400-117868800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
37	chr6:117859400-117868800	Weak transcription	Brain Anterior Caudate	brain
38	chr6:117859600-117868600	Weak transcription	Primary monocytes fromperipheralblood	blood
39	chr6:117859800-117869400	Strong transcription	Fetal Intestine Large	intestine
40	chr6:117860400-117868200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
41	chr6:117860600-117868800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
42	chr6:117860800-117866400	Weak transcription	HUES6 Cell Line	embryonic stem cell
43	chr6:117860800-117868800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
44	chr6:117861000-117869600	Weak transcription	HUES48 Cell Line	embryonic stem cell
45	chr6:117861400-117868800	Weak transcription	Brain Substantia Nigra	brain
46	chr6:117861400-117869200	Genic enhancers	HMEC	breast
47	chr6:117862200-117866000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
48	chr6:117862200-117866000	Weak transcription	Pancreas	Pancrea
49	chr6:117862200-117867400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
50	chr6:117862200-117868400	Weak transcription	Fetal Muscle Leg	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links