Variant report

Variant	rs4476984
Chromosome Location	chr8:105491707-105491708
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr8:105485635..105488574-chr8:105491019..105494304,3	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-LRP12-2	chr8:105490767-105493030	NONHSAT128216

Extended variants
information (count: 63 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs10505059	1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10505061	1.00[YRI][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16871487	1.00[AMR][1000 genomes]
rs16871494	1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16871501	1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16871527	1.00[AMR][1000 genomes]
rs16871528	1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16871529	1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16871532	1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16871540	1.00[AMR][1000 genomes]
rs16871542	1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16871570	1.00[AMR][1000 genomes]
rs16871574	1.00[AMR][1000 genomes]
rs16871659	1.00[AMR][1000 genomes]
rs4478539	1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4492340	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs6468931	1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6468936	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs6468938	1.00[AMR][1000 genomes]
rs6468942	0.91[YRI][hapmap];1.00[AMR][1000 genomes]
rs6981436	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6981448	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6982444	1.00[AMR][1000 genomes]
rs6982693	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs6984085	1.00[AMR][1000 genomes]
rs6984951	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs6986854	1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6988703	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6988869	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6992140	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs6998138	0.91[YRI][hapmap];1.00[AMR][1000 genomes]
rs7000469	1.00[AMR][1000 genomes]
rs7005906	1.00[AMR][1000 genomes]
rs7009946	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7010175	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7813227	1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7813838	1.00[AMR][1000 genomes]
rs7813945	0.82[AFR][1000 genomes]
rs7814211	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7814284	1.00[AMR][1000 genomes]
rs7815196	0.91[YRI][hapmap];1.00[AMR][1000 genomes]
rs7817448	1.00[AMR][1000 genomes]
rs7817730	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7819632	1.00[AMR][1000 genomes]
rs7819974	1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7820450	1.00[AMR][1000 genomes]
rs7820552	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7821042	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs7829983	1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7832076	1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7832455	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs7836110	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs7837072	1.00[AMR][1000 genomes]
rs7837076	1.00[AMR][1000 genomes]
rs7838122	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs7839019	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7841549	1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7842135	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9694695	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1016087	chr8:105228670-105934368	Weak transcription Bivalent/Poised TSS Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv1026754	chr8:105382508-106030916	Enhancers Bivalent Enhancer Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	18 gene(s)	inside rSNPs	diseases
3	nsv539709	chr8:105382508-106030916	Enhancers Weak transcription Genic enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	18 gene(s)	inside rSNPs	diseases
4	nsv831417	chr8:105455814-105625608	Weak transcription Genic enhancers Enhancers ZNF genes & repeats Bivalent Enhancer Strong transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:105485800-105503000	Weak transcription	HSMM	muscle
2	chr8:105485800-105503000	Weak transcription	HSMMtube	muscle
3	chr8:105489400-105512800	Weak transcription	Gastric	stomach
4	chr8:105489600-105503000	Weak transcription	Left Ventricle	heart
5	chr8:105491000-105502600	Weak transcription	Brain Anterior Caudate	brain
6	chr8:105491200-105493000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr8:105491400-105510000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr8:105491400-105517200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell

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