Variant report

Variant	rs4342320
Chromosome Location	chr5:151909029-151909030
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:151908575..151910710-chr5:151911212..151913134,2	MCF-7	breast:

Extended variants
information (count: 72 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:70)

rs_ID	r²[population]
rs10036750	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10045463	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10053277	0.81[AMR][1000 genomes]
rs10061873	0.83[AMR][1000 genomes]
rs1035398	1.00[JPT][hapmap]
rs10515669	1.00[JPT][hapmap]
rs12188564	0.87[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs17113291	1.00[JPT][hapmap]
rs17451282	1.00[JPT][hapmap]
rs17451303	1.00[JPT][hapmap]
rs17452090	0.85[AMR][1000 genomes]
rs17452991	0.87[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs17453481	0.87[AFR][1000 genomes]
rs17453530	0.87[AFR][1000 genomes]
rs17453740	0.87[AFR][1000 genomes]
rs17453775	0.87[AFR][1000 genomes]
rs17454420	0.87[AFR][1000 genomes]
rs17549307	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17549488	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17550343	0.87[AFR][1000 genomes]
rs2080930	1.00[JPT][hapmap]
rs2194084	1.00[JPT][hapmap]
rs28663290	0.85[AMR][1000 genomes]
rs28687145	0.84[AMR][1000 genomes]
rs2961741	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2961766	0.80[EUR][1000 genomes]
rs2964230	0.80[EUR][1000 genomes]
rs4246030	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4407620	0.85[AMR][1000 genomes]
rs4475248	0.85[AMR][1000 genomes]
rs4478308	0.80[EUR][1000 genomes]
rs4557395	0.87[AFR][1000 genomes]
rs4958323	0.87[AFR][1000 genomes]
rs4958543	1.00[JPT][hapmap]
rs4958551	0.87[AFR][1000 genomes];0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4958554	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4958555	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4958557	0.83[AMR][1000 genomes]
rs4958559	0.82[AMR][1000 genomes]
rs4958561	0.87[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs4958562	0.87[AFR][1000 genomes]
rs55648729	0.87[AFR][1000 genomes]
rs55696164	0.87[AFR][1000 genomes];0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs55748286	0.85[AMR][1000 genomes]
rs55858427	0.85[AMR][1000 genomes]
rs56012817	0.83[AMR][1000 genomes]
rs56014830	0.87[AFR][1000 genomes]
rs56050684	0.87[AFR][1000 genomes];0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6876403	0.81[EUR][1000 genomes]
rs72795336	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72795339	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72795340	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72795344	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72795349	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72795350	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72795351	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72795352	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72795354	0.85[AMR][1000 genomes]
rs72795364	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72795366	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72795376	0.80[EUR][1000 genomes]
rs72795379	0.87[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs72795389	0.87[AFR][1000 genomes]
rs72797233	0.87[AFR][1000 genomes]
rs72797237	0.87[AFR][1000 genomes]
rs72797243	0.87[AFR][1000 genomes]
rs72797251	0.87[AFR][1000 genomes]
rs72797254	0.87[AFR][1000 genomes]
rs72797262	0.87[AFR][1000 genomes]
rs72797296	0.87[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1023828	chr5:151522149-151956217	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv1028516	chr5:151896509-151930647	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:151907000-151909800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr5:151907800-151910000	Enhancers	H1 Cell Line	embryonic stem cell
3	chr5:151907800-151910000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr5:151907800-151910400	Enhancers	Fetal Lung	lung
5	chr5:151908000-151910000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
6	chr5:151908200-151909200	Flanking Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr5:151908200-151909200	Weak transcription	Placenta	Placenta
8	chr5:151908200-151909400	Enhancers	Left Ventricle	heart
9	chr5:151908200-151909600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr5:151908200-151910400	Enhancers	HUES48 Cell Line	embryonic stem cell
11	chr5:151908200-151910400	Enhancers	HUES64 Cell Line	embryonic stem cell
12	chr5:151908200-151910400	Enhancers	iPS-15b Cell Line	embryonic stem cell
13	chr5:151908400-151909200	Enhancers	Right Ventricle	heart
14	chr5:151908600-151909200	Enhancers	Fetal Brain Female	brain
15	chr5:151908600-151909400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
16	chr5:151908600-151910400	Enhancers	iPS-18 Cell Line	embryonic stem cell
17	chr5:151908800-151909200	Flanking Active TSS	ES-I3 Cell Line	embryonic stem cell
18	chr5:151908800-151909200	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
19	chr5:151909000-151909200	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
20	chr5:151909000-151909400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr5:151909000-151909400	Enhancers	Right Atrium	heart

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