Variant report

Variant	rs10946142
Chromosome Location	chr6:166660407-166660408
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs12524797	0.85[ASN][1000 genomes]
rs4489135	0.84[JPT][hapmap];0.81[ASN][1000 genomes]
rs4710030	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs4710031	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6909545	0.83[CHB][hapmap];0.86[ASN][1000 genomes]
rs6931334	0.83[CHB][hapmap];0.83[ASN][1000 genomes]
rs932592	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9348099	0.86[ASN][1000 genomes]
rs9348102	0.93[CEU][hapmap];0.89[CHB][hapmap];0.89[JPT][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9348105	1.00[CEU][hapmap];0.89[CHB][hapmap];0.84[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9356450	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9356457	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[YRI][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9364836	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9365974	1.00[CEU][hapmap];0.89[CHB][hapmap];0.84[JPT][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][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	nsv1029993	chr6:166621852-166695791	Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Active TSS Weak transcription Bivalent/Poised TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv538537	chr6:166621852-166695791	Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv886934	chr6:166642850-166747572	Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:166655200-166666400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr6:166658400-166666400	Weak transcription	Monocytes-CD14+_RO01746	blood
3	chr6:166658600-166661600	Enhancers	Dnd41	blood
4	chr6:166658800-166661200	Weak transcription	Primary B cells from cord blood	blood
5	chr6:166658800-166664200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
6	chr6:166659000-166664200	Weak transcription	Primary hematopoietic stem cells	blood
7	chr6:166659000-166664200	Weak transcription	Fetal Thymus	thymus
8	chr6:166659000-166664800	Weak transcription	Primary T cells from cord blood	blood
9	chr6:166660400-166660800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood

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

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