Variant report

Variant	rs2623999
Chromosome Location	chr15:73614114-73614115
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	chr15:73613904..73616034-chr15:73833950..73836830,2	MCF-7	breast:

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs11072404	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1320241	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1479336	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1620369	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1621216	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1631796	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1678246	0.95[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1678247	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1871387	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1960423	0.99[ASN][1000 genomes]
rs2619257	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2619258	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2623989	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2623991	0.95[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2623992	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2624000	0.82[EUR][1000 genomes]
rs2660822	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2660825	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2660828	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2680336	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2680337	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2680342	0.80[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2680345	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2680346	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4564531	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4570800	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs471192	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4776627	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4776629	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs481579	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs484515	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs484544	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs489873	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs494493	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs497539	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs499098	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs513744	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs525587	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs529004	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs542259	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs549377	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs553238	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs561929	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs68053508	0.88[EUR][1000 genomes]
rs8037761	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs8039308	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9806271	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv904343	chr15:73396760-73775043	Strong transcription Bivalent Enhancer Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Genic enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
2	nsv457202	chr15:73612377-73680301	Bivalent Enhancer Weak transcription Enhancers Flanking Bivalent TSS/Enh Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv569949	chr15:73612377-73680301	Enhancers Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv524049	chr15:73612833-73680301	Weak transcription Bivalent/Poised TSS Flanking Active TSS Enhancers Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:73596800-73616800	Weak transcription	HUES48 Cell Line	embryonic stem cell
2	chr15:73598200-73622800	Weak transcription	Right Atrium	heart
3	chr15:73598800-73620000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
4	chr15:73601000-73617800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr15:73601600-73615600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr15:73611000-73620200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
7	chr15:73611400-73622200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr15:73612000-73614200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
9	chr15:73612000-73615400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
10	chr15:73612000-73615800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr15:73612000-73617400	Weak transcription	Fetal Heart	heart
12	chr15:73612000-73618000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr15:73612000-73620200	Weak transcription	HUES64 Cell Line	embryonic stem cell
14	chr15:73612200-73614800	Weak transcription	Fetal Brain Female	brain
15	chr15:73612200-73623200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
16	chr15:73612400-73616600	Weak transcription	Fetal Intestine Small	intestine
17	chr15:73612400-73618400	Weak transcription	Brain Germinal Matrix	brain
18	chr15:73612400-73620200	Weak transcription	H9 Cell Line	embryonic stem cell
19	chr15:73612400-73623000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
20	chr15:73612600-73615400	Weak transcription	H1 Cell Line	embryonic stem cell
21	chr15:73612600-73617200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
22	chr15:73613400-73615000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
23	chr15:73613600-73616200	Strong transcription	Right Ventricle	heart
24	chr15:73613800-73614200	Genic enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
25	chr15:73614000-73614600	Enhancers	Fetal Brain Male	brain
26	chr15:73614000-73618600	Weak transcription	HUES6 Cell Line	embryonic stem cell

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