Variant report

Variant	rs12571742
Chromosome Location	chr10:52789893-52789894
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs12569858	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12569866	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12573170	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12573726	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2660214	1.00[JPT][hapmap]
rs2816827	1.00[ASN][1000 genomes]
rs56866455	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59329249	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs60142011	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73322628	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73322629	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73322636	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73322644	0.81[EUR][1000 genomes]
rs73322648	0.81[EUR][1000 genomes]
rs73322650	0.81[EUR][1000 genomes]
rs73332813	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73332872	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73334845	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73334849	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][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	nsv831872	chr10:52663328-52818537	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv831873	chr10:52710610-52899540	Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Enhancers Active TSS Bivalent Enhancer Flanking Active TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:52756800-52794800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr10:52782800-52791800	Weak transcription	Psoas Muscle	Psoas
3	chr10:52784200-52791000	Weak transcription	Fetal Lung	lung
4	chr10:52785400-52791800	Weak transcription	Ovary	ovary
5	chr10:52787000-52791600	Weak transcription	Right Ventricle	heart
6	chr10:52788000-52793600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr10:52788800-52790400	Enhancers	HMEC	breast
8	chr10:52789000-52790600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr10:52789000-52790600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr10:52789000-52791200	Weak transcription	Fetal Kidney	kidney
11	chr10:52789400-52791400	Weak transcription	Skeletal Muscle Female	skeletal muscle
12	chr10:52789400-52791800	Weak transcription	NHLF	lung
13	chr10:52789600-52790000	Weak transcription	Aorta	Aorta
14	chr10:52789600-52791200	Weak transcription	Colon Smooth Muscle	Colon
15	chr10:52789600-52791400	Weak transcription	Rectal Smooth Muscle	rectum
16	chr10:52789600-52791400	Weak transcription	HSMMtube	muscle
17	chr10:52789600-52791800	Weak transcription	Skeletal Muscle Male	skeletal muscle
18	chr10:52789600-52792000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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