Variant report

Variant	rs2987840
Chromosome Location	chr10:25782229-25782230
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:25781802..25784732-chr10:25785039..25787910,3	K562	blood:
2	chr10:25777451..25779468-chr10:25780530..25783047,2	MCF-7	breast:
3	chr10:25773088..25775353-chr10:25781192..25783925,2	MCF-7	breast:
4	chr10:25781301..25783686-chr10:25790509..25792749,2	K562	blood:

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs10508695	0.82[ASN][1000 genomes]
rs10508696	0.82[ASN][1000 genomes]
rs1069531	0.81[EUR][1000 genomes]
rs11014576	0.82[ASN][1000 genomes]
rs12766947	0.82[ASN][1000 genomes]
rs12778509	0.82[ASN][1000 genomes]
rs1329255	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1329256	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1329257	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1360123	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1361634	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1620326	0.83[ASN][1000 genomes]
rs1773636	0.82[EUR][1000 genomes]
rs1773637	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1928365	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2480349	0.83[ASN][1000 genomes]
rs2987832	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2987833	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2987834	0.83[ASN][1000 genomes]
rs2987835	0.83[ASN][1000 genomes]
rs2987836	0.83[ASN][1000 genomes]
rs2987838	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2987839	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3005181	0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3005182	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3005184	0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs3005185	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3005187	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3005189	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3005191	0.83[ASN][1000 genomes]
rs3005193	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3005194	0.81[EUR][1000 genomes]
rs34535236	0.82[ASN][1000 genomes]
rs57048226	0.82[ASN][1000 genomes]
rs66516873	0.82[ASN][1000 genomes]
rs67290477	0.82[ASN][1000 genomes]
rs67616835	0.82[ASN][1000 genomes]
rs702980	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7084979	0.82[ASN][1000 genomes]
rs7085111	0.82[ASN][1000 genomes]
rs7089568	0.82[ASN][1000 genomes]
rs824588	0.83[ASN][1000 genomes]
rs824607	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs824608	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs824609	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs824610	0.82[EUR][1000 genomes];0.83[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	esv3349863	chr10:25614571-25946379	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:25765800-25782800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr10:25775600-25782400	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr10:25778800-25782400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr10:25779800-25784000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr10:25780000-25783200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr10:25780000-25784000	Enhancers	HUES64 Cell Line	embryonic stem cell
7	chr10:25780200-25783600	Enhancers	HUES48 Cell Line	embryonic stem cell
8	chr10:25780800-25782400	Enhancers	HUVEC	blood vessel
9	chr10:25780800-25783000	Enhancers	HUES6 Cell Line	embryonic stem cell
10	chr10:25780800-25783200	Enhancers	iPS-15b Cell Line	embryonic stem cell
11	chr10:25780800-25784200	Enhancers	Cortex derived primary cultured neurospheres	brain
12	chr10:25781200-25783200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
13	chr10:25781200-25783200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
14	chr10:25781200-25783200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr10:25781200-25783800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
16	chr10:25781400-25782600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr10:25781400-25782800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr10:25781400-25785000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr10:25781600-25782600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
20	chr10:25781600-25782800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
21	chr10:25781600-25788200	Weak transcription	H1 Cell Line	embryonic stem cell
22	chr10:25781800-25782400	Weak transcription	NHEK	skin
23	chr10:25782000-25782800	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
24	chr10:25782000-25783200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
25	chr10:25782000-25783200	Enhancers	Fetal Heart	heart
26	chr10:25782200-25782400	Enhancers	Brain Anterior Caudate	brain
27	chr10:25782200-25782400	Active TSS	A549	lung
28	chr10:25782200-25782400	Enhancers	K562	blood
29	chr10:25782200-25782800	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
30	chr10:25782200-25783200	Enhancers	Hela-S3	cervix
31	chr10:25782200-25783200	Enhancers	NH-A	brain
32	chr10:25782200-25784000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
33	chr10:25782200-25788200	Weak transcription	H9 Cell Line	embryonic stem cell

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