Variant report

Variant	rs13199297
Chromosome Location	chr6:121436070-121436071
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs10456938	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10457413	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10457414	1.00[CEU][hapmap];0.88[AFR][1000 genomes];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11153999	0.85[CEU][hapmap];0.85[CHB][hapmap]
rs11154012	1.00[ASW][hapmap];0.90[MEX][hapmap];0.81[TSI][hapmap]
rs12192398	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12206641	1.00[ASW][hapmap];0.92[CHB][hapmap];0.82[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];0.89[MKK][hapmap];0.87[TSI][hapmap];0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12212646	0.81[CEU][hapmap]
rs1290679	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs17644324	1.00[ASW][hapmap];0.90[MEX][hapmap];0.85[TSI][hapmap]
rs28877073	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs407630	1.00[ASW][hapmap];0.80[CEU][hapmap];0.83[GIH][hapmap];0.90[MEX][hapmap];0.86[TSI][hapmap];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs421242	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7745023	1.00[ASW][hapmap];0.90[MEX][hapmap];0.81[TSI][hapmap]
rs9387918	0.81[CEU][hapmap];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1023384	chr6:121235867-121683448	Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
2	nsv530527	chr6:121298528-121789855	ZNF genes & repeats Enhancers Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	esv1812259	chr6:121404112-121451095	ZNF genes & repeats Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:121390800-121444000	Weak transcription	Ovary	ovary
2	chr6:121403600-121443400	Weak transcription	Left Ventricle	heart
3	chr6:121411800-121443000	Weak transcription	Primary T cells from cord blood	blood
4	chr6:121415400-121442200	Weak transcription	Primary hematopoietic stem cells	blood
5	chr6:121418000-121442200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr6:121418200-121443800	Weak transcription	Dnd41	blood
7	chr6:121418600-121446200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr6:121419800-121446200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
9	chr6:121426600-121445200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr6:121429600-121455600	Weak transcription	Brain Substantia Nigra	brain
11	chr6:121432600-121444000	Weak transcription	Primary T helper cells fromperipheralblood	blood
12	chr6:121433000-121445200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
13	chr6:121433800-121446200	Weak transcription	Pancreas	Pancrea
14	chr6:121434400-121442400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
15	chr6:121436000-121443000	Weak transcription	Primary B cells from cord blood	blood

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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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