Variant report

Variant	rs10780724
Chromosome Location	chr9:72565799-72565800
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 69 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs1027283	0.93[ASN][1000 genomes]
rs1027284	0.93[ASN][1000 genomes]
rs10735572	0.87[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs10780718	0.85[AFR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10780720	1.00[AFR][1000 genomes];0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10868248	0.81[CHB][hapmap]
rs10868291	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10868299	0.99[ASN][1000 genomes]
rs10868327	0.99[ASN][1000 genomes]
rs10868358	0.88[ASN][1000 genomes]
rs10868378	0.83[ASN][1000 genomes]
rs1121607	0.87[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs1121608	0.87[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs1389125	0.93[ASN][1000 genomes]
rs1473520	0.85[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs1493046	0.96[ASN][1000 genomes]
rs1493047	0.87[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs1493051	0.80[AFR][1000 genomes];0.98[EUR][1000 genomes]
rs1493054	0.82[EUR][1000 genomes]
rs1542769	0.93[ASN][1000 genomes]
rs1565685	0.96[EUR][1000 genomes]
rs1565686	0.94[EUR][1000 genomes]
rs1586914	1.00[AFR][1000 genomes];0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1873825	0.83[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs1907956	0.88[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs1907959	0.89[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs1976234	0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2035922	0.83[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs2975859	0.83[ASN][1000 genomes]
rs2975860	0.83[ASN][1000 genomes]
rs2975926	0.83[ASN][1000 genomes]
rs3015226	0.84[ASN][1000 genomes]
rs4403478	0.88[ASN][1000 genomes]
rs4413835	0.83[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs4418399	0.84[ASN][1000 genomes]
rs4445287	1.00[CEU][hapmap];0.84[CHB][hapmap];0.95[JPT][hapmap];0.83[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs4487845	0.93[ASN][1000 genomes]
rs4490905	0.93[ASN][1000 genomes]
rs4574911	0.93[ASN][1000 genomes]
rs4636269	0.88[ASN][1000 genomes]
rs4744583	0.88[ASN][1000 genomes]
rs4744584	0.84[ASN][1000 genomes]
rs4744959	0.88[AFR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs60125094	0.83[EUR][1000 genomes]
rs6559850	0.86[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs6559854	0.86[AFR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7019025	0.83[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs7023406	0.83[ASN][1000 genomes]
rs7025044	0.98[AFR][1000 genomes];0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7029606	0.89[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs7035415	0.93[ASN][1000 genomes]
rs7037671	0.85[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs7847934	0.83[AFR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7863165	0.99[ASN][1000 genomes]
rs7863229	0.88[ASN][1000 genomes]
rs7869305	0.83[AFR][1000 genomes];0.98[EUR][1000 genomes]
rs870011	0.93[ASN][1000 genomes]
rs902964	0.83[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs931500	0.83[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs953372	0.88[ASN][1000 genomes]
rs996375	0.88[AFR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1050920	chr9:72345297-72579301	Weak transcription Enhancers Strong transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv893438	chr9:72363992-72720438	Weak transcription Enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
3	nsv831612	chr9:72473778-72634253	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv893439	chr9:72500956-72568962	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv1043276	chr9:72522231-72571726	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv1049457	chr9:72539144-72765913	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	nsv1035668	chr9:72555053-72632796	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
8	nsv1051004	chr9:72557761-72632015	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:72562400-72566000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr9:72562800-72566200	Weak transcription	HMEC	breast
3	chr9:72562800-72566200	Weak transcription	HSMM	muscle
4	chr9:72562800-72566200	Weak transcription	NH-A	brain
5	chr9:72565200-72566200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr9:72565200-72566200	Weak transcription	Osteobl	bone

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