Variant report

Variant	rs7974909
Chromosome Location	chr12:10242689-10242690
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 93 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:92)

rs_ID	r²[population]
rs10772231	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[YRI][hapmap];0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10772234	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.96[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10845032	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10845035	0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10845037	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10845038	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10845039	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10845040	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10845041	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11053577	0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11053578	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11053579	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11053580	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11053581	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11053589	0.85[CHB][hapmap]
rs12300167	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12370211	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12372259	0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12372577	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1352477	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1387140	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1948184	1.00[CHB][hapmap];0.94[JPT][hapmap];0.94[ASN][1000 genomes]
rs1948185	1.00[CHB][hapmap];0.90[JPT][hapmap];0.95[ASN][1000 genomes]
rs2087304	0.88[ASN][1000 genomes]
rs2087305	0.87[ASN][1000 genomes]
rs2087306	0.85[ASN][1000 genomes]
rs2087307	0.95[CHB][hapmap];0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs2220436	1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[YRI][hapmap];0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2277416	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2306891	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2306892	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2306893	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2306894	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2401600	0.93[ASN][1000 genomes]
rs2401601	0.93[ASN][1000 genomes]
rs2401602	0.92[ASN][1000 genomes]
rs2401603	0.95[CHB][hapmap];0.95[JPT][hapmap];0.92[ASN][1000 genomes]
rs2401604	0.95[CHB][hapmap];0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs2401605	0.93[ASN][1000 genomes]
rs2401606	0.93[ASN][1000 genomes]
rs2401607	0.93[ASN][1000 genomes]
rs2401614	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2401615	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2401616	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3816845	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3825300	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3886137	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[YRI][hapmap];0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3886143	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[YRI][hapmap]
rs3887490	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[YRI][hapmap];0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3912644	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3912645	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3994131	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3994132	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4265666	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.93[YRI][hapmap];0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4499082	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4595634	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[YRI][hapmap];0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4764247	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4764248	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4764249	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4764250	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4764251	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs5012088	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6416262	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6416263	0.93[ASN][1000 genomes]
rs6488249	1.00[CEU][hapmap];0.96[YRI][hapmap];0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6488250	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[YRI][hapmap];0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6488252	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6488253	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6488254	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6488256	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6488257	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6488258	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6488259	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6488261	0.84[ASN][1000 genomes]
rs7313750	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7953886	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs7956208	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7956327	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7957278	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7960611	0.86[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.92[YRI][hapmap];0.92[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs7962246	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7962341	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7969125	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs7970083	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7972187	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7976945	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7977902	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7979762	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7980213	0.83[AMR][1000 genomes]
rs7980801	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs952545	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs952546	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[EUR][1000 genomes];0.95[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	nsv898757	chr12:10229281-10614641	Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	48 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:10222800-10248400	Weak transcription	Psoas Muscle	Psoas
2	chr12:10228600-10247200	Weak transcription	HUVEC	blood vessel
3	chr12:10237000-10244800	Weak transcription	Left Ventricle	heart
4	chr12:10237000-10246200	Weak transcription	Adipose Nuclei	Adipose
5	chr12:10241200-10243000	Enhancers	HUES48 Cell Line	embryonic stem cell
6	chr12:10241200-10243800	Enhancers	Primary monocytes fromperipheralblood	blood
7	chr12:10241600-10243000	Enhancers	HUES6 Cell Line	embryonic stem cell
8	chr12:10241800-10242800	Enhancers	HUES64 Cell Line	embryonic stem cell
9	chr12:10241800-10242800	Enhancers	iPS-15b Cell Line	embryonic stem cell
10	chr12:10241800-10242800	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
11	chr12:10241800-10243000	Enhancers	ES-I3 Cell Line	embryonic stem cell
12	chr12:10241800-10243000	Enhancers	iPS-18 Cell Line	embryonic stem cell
13	chr12:10241800-10243000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
14	chr12:10241800-10243200	Enhancers	H1 Cell Line	embryonic stem cell
15	chr12:10241800-10243200	Enhancers	Primary neutrophils fromperipheralblood	blood
16	chr12:10242000-10242800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr12:10242400-10243000	Flanking Active TSS	GM12878-XiMat	blood
18	chr12:10242600-10242800	Enhancers	Brain Anterior Caudate	brain
19	chr12:10242600-10242800	Enhancers	Brain Hippocampus Middle	brain
20	chr12:10242600-10242800	Enhancers	Duodenum Smooth Muscle	Duodenum
21	chr12:10242600-10243000	Active TSS	Brain Angular Gyrus	brain
22	chr12:10242600-10243000	Active TSS	Right Atrium	heart

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