Variant report

Variant	rs9821898
Chromosome Location	chr3:139663500-139663501
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 27 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs17397077	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs2009192	0.92[EUR][1000 genomes]
rs28698664	0.83[EUR][1000 genomes]
rs35018094	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs67271705	0.92[EUR][1000 genomes]
rs71314532	0.92[EUR][1000 genomes]
rs7356017	0.82[YRI][hapmap];0.83[EUR][1000 genomes]
rs980337	0.87[EUR][1000 genomes]
rs9809477	0.92[EUR][1000 genomes]
rs9813092	1.00[YRI][hapmap];0.83[EUR][1000 genomes]
rs9824300	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9824931	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs9835329	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9852679	1.00[YRI][hapmap];0.83[EUR][1000 genomes]
rs9860322	0.82[YRI][hapmap];0.83[EUR][1000 genomes]
rs9864420	0.83[EUR][1000 genomes]
rs9870376	0.83[YRI][hapmap];0.83[EUR][1000 genomes]
rs9870392	0.82[EUR][1000 genomes]
rs9870579	0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1003154	chr3:139060841-139788752	ZNF genes & repeats Flanking Active TSS Strong transcription Enhancers Weak transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
2	nsv536729	chr3:139060841-139788752	Active TSS Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
3	nsv916193	chr3:139187767-139821526	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
4	nsv530058	chr3:139243971-139814419	Weak transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
5	nsv998423	chr3:139526446-139947336	Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv877544	chr3:139642572-139688415	Bivalent/Poised TSS Weak transcription Enhancers Bivalent Enhancer Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv460866	chr3:139661938-139704174	Enhancers Weak transcription Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
8	nsv591859	chr3:139661938-139704174	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Bivalent Enhancer Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:139660600-139667600	Weak transcription	HSMMtube	muscle
2	chr3:139661200-139665400	Weak transcription	Ovary	ovary
3	chr3:139662800-139665200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr3:139663200-139663600	Enhancers	Left Ventricle	heart
5	chr3:139663400-139663600	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr3:139663400-139663800	Genic enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr3:139663400-139663800	Enhancers	Psoas Muscle	Psoas
8	chr3:139663400-139663800	Enhancers	Skeletal Muscle Female	skeletal muscle

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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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