Variant report

Variant	rs9840061
Chromosome Location	chr3:155241593-155241594
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	chr3:155239458..155242156-chr3:155242242..155245000,2	MCF-7	breast:

Extended variants
information (count: 10 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs10936006	0.86[YRI][hapmap]
rs358706	0.80[CEU][hapmap]
rs358707	0.80[CEU][hapmap]
rs3851357	0.85[CHB][hapmap]
rs393081	0.87[CEU][hapmap]
rs6440997	0.92[YRI][hapmap]
rs7428196	0.84[CEU][hapmap]
rs7645831	0.84[CEU][hapmap]
rs9840234	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];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	esv2763309	chr3:155193454-155256770	Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:155200800-155251400	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr3:155230600-155242800	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr3:155230600-155243800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
4	chr3:155230600-155249000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr3:155230600-155271400	Weak transcription	Rectal Mucosa Donor 31	rectum
6	chr3:155230800-155244400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr3:155230800-155248400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr3:155231200-155253000	Weak transcription	A549	lung
9	chr3:155232200-155253000	Weak transcription	Fetal Intestine Large	intestine
10	chr3:155232200-155258800	Weak transcription	HUES48 Cell Line	embryonic stem cell
11	chr3:155232200-155274000	Weak transcription	Pancreas	Pancrea
12	chr3:155232400-155244000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
13	chr3:155232400-155247000	Weak transcription	Rectal Mucosa Donor 29	rectum
14	chr3:155232400-155250400	Weak transcription	Gastric	stomach
15	chr3:155235400-155249000	Weak transcription	Fetal Intestine Small	intestine
16	chr3:155236200-155249400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr3:155237000-155248800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
18	chr3:155238000-155249000	Strong transcription	Dnd41	blood
19	chr3:155239400-155244000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
20	chr3:155239800-155248200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr3:155241000-155241800	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
22	chr3:155241000-155241800	Strong transcription	HUES64 Cell Line	embryonic stem cell
23	chr3:155241000-155241800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
24	chr3:155241000-155241800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
25	chr3:155241000-155242000	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr3:155241000-155245000	Strong transcription	Thymus	Thymus
27	chr3:155241200-155241800	Strong transcription	H1 Cell Line	embryonic stem cell
28	chr3:155241200-155241800	Strong transcription	HUES6 Cell Line	embryonic stem cell
29	chr3:155241200-155241800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr3:155241200-155241800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
31	chr3:155241200-155241800	Strong transcription	Duodenum Mucosa	Duodenum
32	chr3:155241200-155241800	Strong transcription	Fetal Thymus	thymus
33	chr3:155241200-155241800	Enhancers	Osteobl	bone
34	chr3:155241200-155243800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived

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