Variant report

Variant	rs9568398
Chromosome Location	chr13:50955983-50955984
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:50951881..50954647-chr13:50955074..50957243,3	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-DLEU7-10	chr13:50955892-50956228	NONHSAT033837

Extended variants
information (count: 78 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:73)

rs_ID	r²[population]
rs12428189	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12431131	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1327644	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1359860	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs149875	0.87[ASN][1000 genomes]
rs17074358	0.84[EUR][1000 genomes]
rs1924372	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1924373	0.98[AFR][1000 genomes];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs200222	0.87[ASN][1000 genomes]
rs200223	0.87[ASN][1000 genomes]
rs200224	0.87[ASN][1000 genomes]
rs201796	0.82[ASN][1000 genomes]
rs201798	0.82[ASN][1000 genomes]
rs3116625	0.96[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs35824953	0.83[ASN][1000 genomes]
rs430269	0.87[ASN][1000 genomes]
rs471315	0.80[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs56023535	0.88[EUR][1000 genomes]
rs56075206	0.88[EUR][1000 genomes]
rs58633776	0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs60379059	0.84[EUR][1000 genomes]
rs61962133	0.88[EUR][1000 genomes]
rs61962135	0.83[EUR][1000 genomes]
rs61964386	0.81[EUR][1000 genomes]
rs719103	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7327154	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7983762	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7996632	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs8000329	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs8000875	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs8000921	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9562962	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9562963	0.81[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs9562964	0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9562965	0.83[ASN][1000 genomes]
rs9562966	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9562967	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9562968	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9562970	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9562972	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9562973	0.88[EUR][1000 genomes]
rs9562974	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9562980	0.81[EUR][1000 genomes]
rs9562981	0.81[EUR][1000 genomes]
rs9562982	0.81[EUR][1000 genomes]
rs9568396	0.84[AFR][1000 genomes]
rs9568397	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9568399	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9568400	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9568401	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9568402	0.85[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9568403	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9568404	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9568406	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9568407	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9568408	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9568409	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9568410	0.88[EUR][1000 genomes]
rs9568412	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9568413	0.86[EUR][1000 genomes]
rs9568414	0.86[EUR][1000 genomes]
rs9568415	0.86[EUR][1000 genomes]
rs9568419	0.81[EUR][1000 genomes]
rs9568422	0.81[EUR][1000 genomes]
rs9568423	0.81[EUR][1000 genomes]
rs9568424	0.81[EUR][1000 genomes]
rs9568425	0.81[EUR][1000 genomes]
rs9568427	0.81[EUR][1000 genomes]
rs9568428	0.81[EUR][1000 genomes]
rs9568429	0.81[EUR][1000 genomes]
rs9568430	0.81[EUR][1000 genomes]
rs9634832	0.91[AFR][1000 genomes];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9634834	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1035151	chr13:50513535-51167850	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	1254 gene(s)	inside rSNPs	diseases
2	esv2753964	chr13:50545399-51421199	Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	1256 gene(s)	inside rSNPs	diseases
3	esv2753492	chr13:50550081-51461720	Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Weak transcription Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	1256 gene(s)	inside rSNPs	diseases
4	esv2752608	chr13:50550099-51054499	Weak transcription Enhancers Strong transcription Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	1249 gene(s)	inside rSNPs	diseases
5	nsv832609	chr13:50946577-51065968	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:50950400-50967200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr13:50951600-50961000	Weak transcription	Pancreas	Pancrea
3	chr13:50952800-50959600	Weak transcription	Fetal Heart	heart
4	chr13:50953200-50958600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
5	chr13:50953600-50956200	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
6	chr13:50953800-50957000	ZNF genes & repeats	Dnd41	blood
7	chr13:50954400-50958800	Weak transcription	Psoas Muscle	Psoas
8	chr13:50954600-50956000	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
9	chr13:50954800-50958600	Weak transcription	Skeletal Muscle Male	skeletal muscle
10	chr13:50955200-50956000	ZNF genes & repeats	HUES48 Cell Line	embryonic stem cell
11	chr13:50955200-50957200	Weak transcription	Skeletal Muscle Female	skeletal muscle
12	chr13:50955600-50960400	Weak transcription	HepG2	liver

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