Variant report

Variant	rs3758878
Chromosome Location	chr11:86171003-86171004
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:86169916..86172612-chr11:86280492..86283245,2	MCF-7	breast:
2	chr11:86168596..86172615-chr11:86512849..86516301,3	MCF-7	breast:
3	chr11:86170892..86174262-chr11:86177724..86181309,3	MCF-7	breast:
4	chr11:86160742..86163401-chr11:86170185..86172480,2	MCF-7	breast:
5	chr11:86169610..86171633-chr11:86195084..86198492,3	MCF-7	breast:
6	chr11:86170199..86171040-chr11:86282276..86282814,2	MCF-7	breast:

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs1006586	1.00[CHB][hapmap]
rs1006587	1.00[CHB][hapmap]
rs10444371	1.00[CHB][hapmap]
rs10444372	1.00[CHB][hapmap]
rs10501622	1.00[CHB][hapmap]
rs11234643	1.00[CHB][hapmap]
rs11234668	1.00[CHB][hapmap]
rs11819827	0.85[CEU][hapmap]
rs11828425	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11828585	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11828773	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12420965	1.00[CHB][hapmap]
rs12799562	1.00[CHB][hapmap]
rs17149169	1.00[CHB][hapmap]
rs3758877	0.86[CEU][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3824952	1.00[CHB][hapmap]
rs628449	1.00[CHB][hapmap]
rs7112309	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];0.93[ASN][1000 genomes]
rs7944836	1.00[CHB][hapmap]
rs9645703	1.00[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1044081	chr11:86133641-86868560	Bivalent/Poised TSS Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv541118	chr11:86133641-86868560	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
3	nsv898056	chr11:86156848-86304402	Weak transcription Genic enhancers Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:87 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:86152400-86172200	Weak transcription	Fetal Brain Male	brain
2	chr11:86153200-86187000	Weak transcription	Fetal Kidney	kidney
3	chr11:86157000-86179800	Weak transcription	Fetal Intestine Large	intestine
4	chr11:86158600-86187200	Weak transcription	Duodenum Mucosa	Duodenum
5	chr11:86159600-86196800	Weak transcription	Primary hematopoietic stem cells	blood
6	chr11:86159800-86172600	Weak transcription	Fetal Brain Female	brain
7	chr11:86160200-86221000	Weak transcription	Primary T cells from cord blood	blood
8	chr11:86160600-86171600	Weak transcription	Brain Germinal Matrix	brain
9	chr11:86160800-86173400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
10	chr11:86163000-86172000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr11:86167000-86172800	Enhancers	HUVEC	blood vessel
12	chr11:86167400-86172600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr11:86167400-86172800	Enhancers	Adipose Nuclei	Adipose
14	chr11:86167400-86172800	Enhancers	Right Atrium	heart
15	chr11:86167600-86172200	Enhancers	Breast Myoepithelial Primary Cells	Breast
16	chr11:86167600-86172200	Enhancers	HMEC	breast
17	chr11:86167800-86171200	Weak transcription	Primary T cells fromperipheralblood	blood
18	chr11:86167800-86171400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
19	chr11:86167800-86171800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
20	chr11:86168000-86171600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr11:86168000-86172000	Weak transcription	H1 Cell Line	embryonic stem cell
22	chr11:86168200-86171600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
23	chr11:86168200-86175600	Weak transcription	Rectal Mucosa Donor 31	rectum
24	chr11:86168400-86172200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
25	chr11:86168600-86171800	Enhancers	Hela-S3	cervix
26	chr11:86168800-86172000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
27	chr11:86169000-86171800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
28	chr11:86169000-86172200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
29	chr11:86169200-86172000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
30	chr11:86169400-86171200	Enhancers	Aorta	Aorta
31	chr11:86169400-86172200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
32	chr11:86169400-86172200	Enhancers	Osteobl	bone
33	chr11:86169400-86172800	Enhancers	Fetal Muscle Leg	muscle
34	chr11:86169400-86172800	Enhancers	HSMMtube	muscle
35	chr11:86169400-86174800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
36	chr11:86169600-86171200	Enhancers	Colon Smooth Muscle	Colon
37	chr11:86169600-86172000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
38	chr11:86169600-86172200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
39	chr11:86169600-86172200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
40	chr11:86169600-86172200	Enhancers	Muscle Satellite Cultured Cells	--
41	chr11:86169600-86172200	Enhancers	NHDF-Ad	bronchial
42	chr11:86169600-86172600	Enhancers	HSMM	muscle
43	chr11:86169800-86172200	Enhancers	NH-A	brain
44	chr11:86169800-86172200	Enhancers	NHLF	lung
45	chr11:86169800-86172800	Enhancers	Skeletal Muscle Male	skeletal muscle
46	chr11:86169800-86176200	Enhancers	NHEK	skin
47	chr11:86169800-86178400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
48	chr11:86170000-86172800	Enhancers	Skeletal Muscle Female	skeletal muscle
49	chr11:86170200-86172400	Enhancers	Fetal Heart	heart
50	chr11:86170200-86187200	Weak transcription	Stomach Mucosa	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links