Variant report

Variant	rs12192398
Chromosome Location	chr6:121460381-121460382
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 22 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10456938	0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10457413	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10457414	0.85[CEU][hapmap]
rs11153999	0.93[CEU][hapmap];0.86[CHB][hapmap];1.00[YRI][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11154001	0.87[CEU][hapmap];0.90[AFR][1000 genomes];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11154002	0.90[AFR][1000 genomes];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11154012	0.96[CEU][hapmap]
rs11759795	1.00[CEU][hapmap];1.00[YRI][hapmap];0.80[EUR][1000 genomes]
rs12206641	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12212646	0.95[CEU][hapmap]
rs1290679	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs13199297	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17644324	1.00[CEU][hapmap];1.00[YRI][hapmap];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs28877073	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs407630	0.96[CEU][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs421242	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4945673	0.80[EUR][1000 genomes]
rs7745023	0.96[CEU][hapmap]
rs9387918	0.96[CEU][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[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	nsv966656	chr6:121458378-121463465	ZNF genes & repeats Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:121446800-121464600	Weak transcription	Muscle Satellite Cultured Cells	--
2	chr6:121447000-121463200	Weak transcription	Ovary	ovary
3	chr6:121447200-121463000	Weak transcription	Primary hematopoietic stem cells	blood
4	chr6:121447200-121463200	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr6:121447200-121465000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr6:121447200-121473800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
7	chr6:121447200-121474200	Weak transcription	Rectal Mucosa Donor 29	rectum
8	chr6:121447200-121475000	Weak transcription	Primary B cells from cord blood	blood
9	chr6:121447400-121474200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr6:121447600-121473200	Weak transcription	Primary T cells from cord blood	blood
11	chr6:121447800-121465000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
12	chr6:121459400-121464400	Weak transcription	HSMM	muscle

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dbSNP/dbVar ID: rs12345 /nsv7879
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chromosomal regions: chr1:12345-34567

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