Variant report

Variant	rs683002
Chromosome Location	chr6:150402482-150402483
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:150400674..150403275-chr6:150407304..150409849,2	K562	blood:
2	chr6:150401196..150403539-chr6:150662242..150665059,2	K562	blood:
3	chr6:150401003..150402693-chr6:150655609..150656984,12	MCF-7	breast:
4	chr6:150400447..150403376-chr6:150651283..150654200,2	K562	blood:
5	chr6:150401082..150403253-chr6:150656281..150658165,2	MCF-7	breast:
6	chr6:150388542..150390431-chr6:150401978..150404443,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000131019	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs11754434	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11754488	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11755079	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11756904	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11756945	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11759611	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1194970	0.80[ASN][1000 genomes]
rs13201209	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13216978	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1748295	0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs35742354	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs489664	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs491336	0.82[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs682942	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7738164	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7753353	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7765587	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs789819	0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs789820	0.83[ASN][1000 genomes]
rs789821	0.83[ASN][1000 genomes]
rs789822	0.82[ASN][1000 genomes]
rs789823	0.82[ASN][1000 genomes]
rs789824	0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs789825	0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs789826	0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs789827	0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs789828	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs789829	0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs806072	0.82[EUR][1000 genomes];0.88[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	nsv517022	chr6:150145001-150426272	Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Strong transcription Enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	nsv1026236	chr6:150360882-150408946	Flanking Active TSS Enhancers Active TSS Weak transcription ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv886770	chr6:150395424-150499889	Enhancers Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Active TSS Weak transcription Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:150391200-150410000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr6:150400800-150408400	Weak transcription	NHEK	skin
3	chr6:150401000-150408200	Weak transcription	HMEC	breast
4	chr6:150401000-150408400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr6:150401000-150408400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links