Variant report

Variant	rs2477549
Chromosome Location	chr1:193276037-193276038
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:193253060..193255508-chr1:193274779..193276360,2	MCF-7	breast:

Extended variants
information (count: 91 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:87)

rs_ID	r²[population]
rs10399607	0.81[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs10399929	0.82[AFR][1000 genomes]
rs10737623	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10754052	0.80[EUR][1000 genomes]
rs10754053	0.80[EUR][1000 genomes]
rs10754054	0.92[EUR][1000 genomes]
rs10754055	0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10801192	0.81[ASN][1000 genomes]
rs10801194	0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10921325	0.80[EUR][1000 genomes]
rs10921336	0.91[EUR][1000 genomes]
rs10921343	0.85[EUR][1000 genomes]
rs12025393	0.81[EUR][1000 genomes]
rs12032958	0.81[EUR][1000 genomes]
rs12034095	0.88[EUR][1000 genomes]
rs12037055	0.87[EUR][1000 genomes]
rs12040365	0.87[EUR][1000 genomes]
rs12040832	0.82[EUR][1000 genomes]
rs12041558	0.82[EUR][1000 genomes]
rs12041893	0.87[EUR][1000 genomes]
rs12047390	0.83[EUR][1000 genomes]
rs12048579	0.82[EUR][1000 genomes]
rs1221502	0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1325197	0.80[EUR][1000 genomes]
rs1339961	0.86[EUR][1000 genomes]
rs1361405	0.82[EUR][1000 genomes]
rs1416977	0.99[ASN][1000 genomes]
rs1536097	0.80[EUR][1000 genomes]
rs1616234	0.90[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1632444	0.88[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs16835282	0.91[EUR][1000 genomes]
rs16835304	0.87[EUR][1000 genomes]
rs16835319	0.82[EUR][1000 genomes]
rs16835320	0.82[EUR][1000 genomes]
rs1749424	0.85[AFR][1000 genomes];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1749429	0.85[EUR][1000 genomes]
rs1749430	0.91[EUR][1000 genomes]
rs1749431	0.91[EUR][1000 genomes]
rs1749432	0.91[EUR][1000 genomes]
rs1769999	0.91[EUR][1000 genomes]
rs1972344	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1972345	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2078083	0.85[AFR][1000 genomes];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2182106	0.80[EUR][1000 genomes]
rs2254646	0.88[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2275506	0.81[EUR][1000 genomes]
rs2370264	0.91[ASN][1000 genomes]
rs2486842	0.89[AFR][1000 genomes];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4379660	0.86[AFR][1000 genomes];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4657848	0.82[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs4657854	0.88[EUR][1000 genomes]
rs4657855	0.87[EUR][1000 genomes]
rs475163	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs497362	0.90[EUR][1000 genomes]
rs503265	0.85[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs515964	0.92[EUR][1000 genomes]
rs523402	0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs524701	0.88[AFR][1000 genomes];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs543788	0.88[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs560900	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs569656	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs571029	0.88[AFR][1000 genomes];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs578639	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs59264807	0.91[EUR][1000 genomes]
rs6428153	0.80[EUR][1000 genomes]
rs6428154	0.80[EUR][1000 genomes]
rs6428159	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6428160	0.85[EUR][1000 genomes]
rs6428163	0.87[EUR][1000 genomes]
rs6428166	0.87[EUR][1000 genomes]
rs6665666	0.80[EUR][1000 genomes]
rs6671476	0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6676878	0.80[EUR][1000 genomes]
rs6680224	0.80[EUR][1000 genomes]
rs6693734	0.87[EUR][1000 genomes]
rs693519	0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7528595	0.91[EUR][1000 genomes]
rs7545223	0.82[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs7550521	0.87[EUR][1000 genomes]
rs817136	0.86[AFR][1000 genomes];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs817138	0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs817140	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs817142	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs817143	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs843844	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs942680	0.86[EUR][1000 genomes]
rs9887974	0.98[ASN][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	nsv832148	chr1:193143945-193292897	Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Enhancers Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
2	nsv872831	chr1:193152317-193322087	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
3	nsv1001174	chr1:193186758-193363372	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
4	nsv997891	chr1:193271839-193566441	Flanking Active TSS Active TSS Enhancers ZNF genes & repeats Weak transcription Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:193255200-193280400	Weak transcription	HSMM	muscle

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