Variant report

Variant	rs6546755
Chromosome Location	chr2:72495577-72495578
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:72494142..72496291-chr2:72497712..72499384,2	MCF-7	breast:

Extended variants
information (count: 121 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:119)

rs_ID	r²[population]
rs1000523	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs1003672	0.80[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs10173381	0.86[AFR][1000 genomes]
rs10175915	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10178138	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs10178847	0.85[ASN][1000 genomes]
rs10181899	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs10190799	0.93[ASN][1000 genomes]
rs10192800	1.00[CEU][hapmap];0.80[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10193543	0.85[ASN][1000 genomes]
rs10196589	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs10205108	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs10207299	0.92[AFR][1000 genomes]
rs10209861	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AFR][1000 genomes];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10221767	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs10221769	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs11126362	0.86[ASN][1000 genomes]
rs11126363	0.93[ASN][1000 genomes]
rs1123199	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs1159763	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs1159764	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs1159765	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs1159766	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs12151496	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12466026	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs12466112	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs13382986	0.85[ASN][1000 genomes]
rs13387630	0.85[ASN][1000 genomes]
rs13389524	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs13391463	0.80[CEU][hapmap];1.00[CHB][hapmap];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13392314	0.85[ASN][1000 genomes]
rs13395204	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13404369	0.93[ASN][1000 genomes]
rs13416674	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs13417114	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs13418637	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs13423761	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AFR][1000 genomes];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13430254	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs13430651	0.85[ASN][1000 genomes]
rs13432350	0.96[AFR][1000 genomes]
rs17008208	1.00[JPT][hapmap]
rs17673916	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs17724205	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs17724860	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs17725024	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs1860852	0.80[ASN][1000 genomes]
rs194235	0.92[CEU][hapmap];1.00[CHB][hapmap];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs194239	0.82[ASN][1000 genomes]
rs194242	0.86[ASN][1000 genomes]
rs194243	0.86[ASN][1000 genomes]
rs2041563	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2041564	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2080044	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs2109963	1.00[JPT][hapmap];0.80[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2159823	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs2192014	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2192015	0.92[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs28278	0.86[ASN][1000 genomes]
rs34837782	0.80[ASN][1000 genomes]
rs41386	1.00[CHB][hapmap]
rs41387	1.00[CHB][hapmap]
rs41388	1.00[CHB][hapmap];0.86[ASN][1000 genomes]
rs41389	1.00[CHB][hapmap];0.86[ASN][1000 genomes]
rs41390	1.00[CHB][hapmap];0.86[ASN][1000 genomes]
rs41391	0.86[ASN][1000 genomes]
rs41392	1.00[CHB][hapmap];0.93[ASN][1000 genomes]
rs41393	0.86[ASN][1000 genomes]
rs41394	1.00[CHB][hapmap];0.86[ASN][1000 genomes]
rs41395	0.93[ASN][1000 genomes]
rs41396	1.00[CHB][hapmap];0.86[ASN][1000 genomes]
rs41397	0.80[ASN][1000 genomes]
rs41398	0.86[ASN][1000 genomes]
rs41399	1.00[CHB][hapmap]
rs41400	1.00[CHB][hapmap];0.86[ASN][1000 genomes]
rs41401	1.00[CHB][hapmap];0.93[ASN][1000 genomes]
rs41402	1.00[CHB][hapmap];0.93[ASN][1000 genomes]
rs41403	1.00[CHB][hapmap];0.86[ASN][1000 genomes]
rs41405	1.00[CHB][hapmap];0.86[ASN][1000 genomes]
rs41406	1.00[CHB][hapmap];0.93[ASN][1000 genomes]
rs41407	1.00[CHB][hapmap];0.86[ASN][1000 genomes]
rs41408	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs41410	0.87[ASN][1000 genomes]
rs41411	0.87[ASN][1000 genomes]
rs41412	0.80[ASN][1000 genomes]
rs41413	0.87[ASN][1000 genomes]
rs41414	0.80[ASN][1000 genomes]
rs41418	0.80[ASN][1000 genomes]
rs41419	0.80[ASN][1000 genomes]
rs4852285	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AFR][1000 genomes];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4852859	0.85[ASN][1000 genomes]
rs4852860	0.93[ASN][1000 genomes]
rs4852861	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4852862	0.93[ASN][1000 genomes]
rs55764675	0.85[ASN][1000 genomes]
rs55877105	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55970539	0.85[ASN][1000 genomes]
rs56299443	0.85[ASN][1000 genomes]
rs62147573	0.85[ASN][1000 genomes]
rs62147579	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62147589	0.85[ASN][1000 genomes]
rs62147626	0.85[ASN][1000 genomes]
rs62147629	0.85[ASN][1000 genomes]
rs62147636	0.85[ASN][1000 genomes]
rs6546750	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6546752	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs6546753	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6546756	1.00[AFR][1000 genomes]
rs6546759	0.86[AFR][1000 genomes]
rs6719255	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs6748607	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6751276	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6760895	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7565922	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7595180	0.82[AFR][1000 genomes]
rs768042	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs768043	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9309463	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs9309464	0.80[AFR][1000 genomes]
rs9679148	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][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	nsv963919	chr2:72372956-72830387	Enhancers Strong transcription Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv1005487	chr2:72464784-72819704	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Strong transcription Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 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	chr2:72485200-72501800	Weak transcription	HSMMtube	muscle
2	chr2:72488200-72496600	Weak transcription	Psoas Muscle	Psoas
3	chr2:72489200-72508200	Weak transcription	Aorta	Aorta
4	chr2:72490400-72495800	Weak transcription	Pancreas	Pancrea
5	chr2:72490600-72497200	Weak transcription	Fetal Muscle Leg	muscle
6	chr2:72491200-72495800	Weak transcription	Left Ventricle	heart
7	chr2:72491200-72497000	Weak transcription	Right Atrium	heart
8	chr2:72491200-72502200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr2:72491400-72495800	Weak transcription	Right Ventricle	heart
10	chr2:72491400-72496400	Weak transcription	Fetal Heart	heart
11	chr2:72492200-72498200	Weak transcription	Colon Smooth Muscle	Colon
12	chr2:72492200-72498400	Weak transcription	Brain Angular Gyrus	brain
13	chr2:72495400-72496000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell

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