Variant report

Variant	rs3777588
Chromosome Location	chr6:45919758-45919759
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	chr6:45919715..45922197-chr6:45926352..45928552,2	MCF-7	breast:

Extended variants
information (count: 6 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1555214	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3777580	0.86[AFR][1000 genomes]
rs4714891	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4714896	0.87[YRI][hapmap];0.83[AFR][1000 genomes]
rs72871474	0.82[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	nsv532024	chr6:45475088-45982640	Strong transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:45911000-45923600	Weak transcription	HUES64 Cell Line	embryonic stem cell
2	chr6:45912600-45923000	Genic enhancers	Skeletal Muscle Male	skeletal muscle
3	chr6:45912800-45928400	Weak transcription	Spleen	Spleen
4	chr6:45913800-45920000	Enhancers	Placenta	Placenta
5	chr6:45915800-45919800	Weak transcription	Duodenum Mucosa	Duodenum
6	chr6:45917200-45924800	Weak transcription	Primary T helper cells fromperipheralblood	blood
7	chr6:45918200-45920000	Enhancers	Colonic Mucosa	Colon
8	chr6:45918800-45920000	Enhancers	Stomach Smooth Muscle	stomach
9	chr6:45918800-45920200	Enhancers	Fetal Lung	lung
10	chr6:45918800-45938400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
11	chr6:45919000-45919800	Enhancers	Brain Germinal Matrix	brain
12	chr6:45919000-45920000	Enhancers	Fetal Muscle Leg	muscle
13	chr6:45919000-45920000	Enhancers	Pancreas	Pancrea
14	chr6:45919000-45920200	Enhancers	Fetal Stomach	stomach
15	chr6:45919000-45920400	Enhancers	Gastric	stomach
16	chr6:45919000-45921200	Enhancers	Fetal Heart	heart
17	chr6:45919000-45921400	Enhancers	Psoas Muscle	Psoas
18	chr6:45919000-45921400	Enhancers	Right Atrium	heart
19	chr6:45919000-45921400	Enhancers	HSMMtube	muscle
20	chr6:45919000-45921600	Genic enhancers	Left Ventricle	heart
21	chr6:45919200-45920000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
22	chr6:45919200-45920000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr6:45919200-45920000	Enhancers	Brain Inferior Temporal Lobe	brain
24	chr6:45919200-45920000	Flanking Active TSS	Fetal Kidney	kidney
25	chr6:45919200-45920000	Enhancers	Small Intestine	intestine
26	chr6:45919200-45920800	Enhancers	Lung	lung
27	chr6:45919200-45921400	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
28	chr6:45919200-45921600	Genic enhancers	Right Ventricle	heart
29	chr6:45919200-45923000	Genic enhancers	Skeletal Muscle Female	skeletal muscle
30	chr6:45919200-45923200	Genic enhancers	Rectal Mucosa Donor 31	rectum
31	chr6:45919400-45920000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
32	chr6:45919400-45920000	Active TSS	Rectal Mucosa Donor 29	rectum
33	chr6:45919400-45920800	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
34	chr6:45919400-45921400	Strong transcription	Fetal Intestine Small	intestine
35	chr6:45919400-45923200	Strong transcription	Fetal Intestine Large	intestine
36	chr6:45919600-45920400	Enhancers	Placenta Amnion	Placenta Amnion
37	chr6:45919600-45923800	Weak transcription	Sigmoid Colon	Sigmoid Colon
38	chr6:45919600-45928000	Weak transcription	Adipose Nuclei	Adipose

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links