Variant report

Variant	rs16890175
Chromosome Location	chr6:37767791-37767792
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:37760526..37762581-chr6:37765798..37767816,2	MCF-7	breast:
2	chr6:37758926..37760720-chr6:37767100..37768812,2	K562	blood:
3	chr6:37761965..37764146-chr6:37767297..37769364,2	MCF-7	breast:
4	chr6:37765846..37768187-chr6:37771368..37772947,2	K562	blood:
5	chr6:37764796..37769141-chr6:37786360..37788768,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000156639	Chromatin interaction
ENSG00000225945	Chromatin interaction

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10498739	0.95[CHB][hapmap]
rs10498740	0.90[CHB][hapmap]
rs11544071	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11755592	0.82[CEU][hapmap];0.80[EUR][1000 genomes]
rs11757086	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11757622	0.82[CEU][hapmap]
rs11757695	0.82[CEU][hapmap];0.94[TSI][hapmap];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12660498	0.89[CHB][hapmap]
rs12661480	0.89[CHB][hapmap];0.87[CHD][hapmap]
rs12662305	0.89[CHB][hapmap]
rs16890168	0.88[CHD][hapmap]
rs16890177	0.90[CHB][hapmap];0.83[ASN][1000 genomes]
rs16890181	0.90[CHB][hapmap];0.83[ASN][1000 genomes]
rs16890215	0.90[CHB][hapmap]
rs16890247	0.90[CHB][hapmap]
rs16890298	0.90[CHB][hapmap]
rs16890299	0.90[CHB][hapmap]
rs16890301	0.80[CHD][hapmap]
rs17512095	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17641690	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2036124	0.82[CEU][hapmap];0.87[TSI][hapmap];0.80[EUR][1000 genomes]
rs2064795	0.90[CHB][hapmap];0.83[ASN][1000 genomes]
rs2274090	0.90[CHB][hapmap];0.94[CHD][hapmap];0.81[GIH][hapmap];0.83[ASN][1000 genomes]
rs2395689	0.80[CHD][hapmap]
rs3852216	1.00[ASW][hapmap];0.90[CHB][hapmap];0.94[CHD][hapmap];0.81[GIH][hapmap]
rs55753048	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56093219	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56136126	0.85[AMR][1000 genomes]
rs57198506	0.83[ASN][1000 genomes]
rs58692659	0.87[ASN][1000 genomes]
rs59649654	0.82[ASN][1000 genomes]
rs60141491	0.83[ASN][1000 genomes]
rs60284537	0.83[ASN][1000 genomes]
rs60672298	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs60943435	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs60977329	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs61125348	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs61332486	0.87[ASN][1000 genomes]
rs61466900	0.83[ASN][1000 genomes]
rs6910601	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs72849339	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72849341	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72849350	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs72849354	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs72849359	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs72849369	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs72850806	0.85[AMR][1000 genomes]
rs752110	0.84[CHB][hapmap];0.89[CHD][hapmap]
rs7739801	0.94[CHB][hapmap];1.00[JPT][hapmap]
rs7747199	0.82[CEU][hapmap];0.87[TSI][hapmap];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7756261	0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7767466	0.82[CEU][hapmap];0.95[AMR][1000 genomes];0.95[EUR][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	nsv1028825	chr6:37495154-38278320	Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
2	nsv1024016	chr6:37567651-37981590	Weak transcription Enhancers Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:37759200-37768400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
2	chr6:37759800-37768600	Weak transcription	Cortex derived primary cultured neurospheres	brain
3	chr6:37766400-37768200	Enhancers	Skeletal Muscle Male	skeletal muscle
4	chr6:37766400-37768800	Enhancers	Fetal Stomach	stomach
5	chr6:37766400-37775400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr6:37766800-37767800	Enhancers	Fetal Intestine Small	intestine
7	chr6:37767000-37767800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr6:37767000-37767800	Enhancers	Fetal Intestine Large	intestine
9	chr6:37767200-37767800	Enhancers	Aorta	Aorta
10	chr6:37767200-37767800	Enhancers	Liver	Liver
11	chr6:37767400-37768800	Enhancers	HepG2	liver
12	chr6:37767400-37775400	Weak transcription	Skeletal Muscle Female	skeletal muscle
13	chr6:37767400-37777000	Weak transcription	Right Atrium	heart

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