Variant report

Variant	rs10513477
Chromosome Location	chr3:155240614-155240615
allele	G/T
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:
2	chr3:155235777..155238536-chr3:155239012..155241056,2	K562	blood:

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs11915298	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.88[YRI][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11922945	1.00[CEU][hapmap];0.88[YRI][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11925864	1.00[GIH][hapmap];0.88[TSI][hapmap]
rs16825234	1.00[ASN][1000 genomes]
rs34132051	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55958773	0.95[EUR][1000 genomes]
rs56328238	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs58162674	1.00[ASN][1000 genomes]
rs58539739	0.95[EUR][1000 genomes]
rs59529957	1.00[ASN][1000 genomes]
rs59992845	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60135229	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60472887	1.00[ASN][1000 genomes]
rs60670071	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60945017	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61042393	1.00[ASN][1000 genomes]
rs61572323	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6441000	0.81[YRI][hapmap]
rs6766660	1.00[ASN][1000 genomes]
rs6774326	1.00[CEU][hapmap];1.00[ASN][1000 genomes]
rs6807629	1.00[ASN][1000 genomes]
rs72996997	1.00[ASN][1000 genomes]
rs72997000	1.00[ASN][1000 genomes]
rs72998903	1.00[ASN][1000 genomes]
rs73005062	1.00[ASN][1000 genomes]
rs73005096	1.00[ASN][1000 genomes]
rs73011584	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73011588	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73011589	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73011590	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73874804	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73874805	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73874807	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73874808	0.95[EUR][1000 genomes]
rs73874814	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73874815	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73874816	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73874820	1.00[ASN][1000 genomes]
rs73874824	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73874835	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs934593	0.85[YRI][hapmap]

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	chr3:155230400-155241000	Weak transcription	HUES64 Cell Line	embryonic stem cell
3	chr3:155230600-155241000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr3:155230600-155241200	Weak transcription	H1 Cell Line	embryonic stem cell
5	chr3:155230600-155242800	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr3:155230600-155243800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
7	chr3:155230600-155249000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr3:155230600-155271400	Weak transcription	Rectal Mucosa Donor 31	rectum
9	chr3:155230800-155241200	Weak transcription	HUES6 Cell Line	embryonic stem cell
10	chr3:155230800-155244400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr3:155230800-155248400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr3:155231200-155253000	Weak transcription	A549	lung
13	chr3:155232200-155241000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
14	chr3:155232200-155241200	Weak transcription	Esophagus	oesophagus
15	chr3:155232200-155253000	Weak transcription	Fetal Intestine Large	intestine
16	chr3:155232200-155258800	Weak transcription	HUES48 Cell Line	embryonic stem cell
17	chr3:155232200-155274000	Weak transcription	Pancreas	Pancrea
18	chr3:155232400-155241200	Weak transcription	Duodenum Mucosa	Duodenum
19	chr3:155232400-155244000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
20	chr3:155232400-155247000	Weak transcription	Rectal Mucosa Donor 29	rectum
21	chr3:155232400-155250400	Weak transcription	Gastric	stomach
22	chr3:155235400-155249000	Weak transcription	Fetal Intestine Small	intestine
23	chr3:155236200-155241200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr3:155236200-155249400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
25	chr3:155236400-155241200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
26	chr3:155237000-155248800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
27	chr3:155238000-155249000	Strong transcription	Dnd41	blood
28	chr3:155238600-155241200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
29	chr3:155238800-155241000	Weak transcription	Thymus	Thymus
30	chr3:155238800-155241200	Weak transcription	Fetal Thymus	thymus
31	chr3:155239400-155244000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
32	chr3:155239800-155241000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr3:155239800-155241000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
34	chr3:155239800-155248200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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