Variant report

Variant	rs10041355
Chromosome Location	chr5:127281615-127281616
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	chr5:127210963..127213061-chr5:127280494..127282424,2	MCF-7	breast:

Extended variants
information (count: 77 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:75)

rs_ID	r²[population]
rs10040931	0.96[CEU][hapmap];0.92[EUR][1000 genomes]
rs10041388	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10052149	0.83[EUR][1000 genomes]
rs10055964	0.92[CEU][hapmap];0.92[YRI][hapmap];0.82[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs10057048	0.83[EUR][1000 genomes]
rs10059403	0.89[CEU][hapmap];0.83[EUR][1000 genomes]
rs10074995	0.84[JPT][hapmap]
rs10076010	0.83[EUR][1000 genomes]
rs10079317	0.85[JPT][hapmap]
rs1013374	0.94[EUR][1000 genomes]
rs1013375	0.94[EUR][1000 genomes]
rs10478786	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10478787	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10478788	0.93[CEU][hapmap];0.83[EUR][1000 genomes]
rs10478790	0.83[EUR][1000 genomes]
rs10478792	0.89[CEU][hapmap]
rs10519968	0.86[CEU][hapmap]
rs10519977	0.85[CEU][hapmap]
rs10900794	0.82[CHB][hapmap];0.85[JPT][hapmap];0.80[ASN][1000 genomes]
rs11740438	0.81[JPT][hapmap]
rs11740439	0.84[JPT][hapmap]
rs11741283	0.80[ASN][1000 genomes]
rs11745009	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11745023	0.96[CEU][hapmap];0.92[EUR][1000 genomes]
rs12517005	0.81[CHB][hapmap];0.84[JPT][hapmap];0.80[ASN][1000 genomes]
rs12523625	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12658023	0.85[JPT][hapmap]
rs13154863	0.80[EUR][1000 genomes]
rs13161109	0.80[EUR][1000 genomes]
rs13174053	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13177354	0.92[CEU][hapmap];0.85[EUR][1000 genomes]
rs13180050	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13361741	0.84[JPT][hapmap]
rs1520246	0.84[JPT][hapmap]
rs1558149	1.00[CEU][hapmap];0.90[CHB][hapmap];0.89[JPT][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17606751	0.89[CEU][hapmap];0.85[EUR][1000 genomes]
rs2041143	0.96[CEU][hapmap];0.84[EUR][1000 genomes]
rs2108652	0.83[EUR][1000 genomes]
rs2108654	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2159110	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2409037	0.81[CHB][hapmap];0.83[JPT][hapmap];0.80[ASN][1000 genomes]
rs2409038	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2409039	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2409040	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2898077	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34498802	0.81[EUR][1000 genomes]
rs35713319	0.83[EUR][1000 genomes]
rs4835934	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4836345	0.84[JPT][hapmap]
rs5008451	0.89[CEU][hapmap]
rs55896045	0.80[ASN][1000 genomes]
rs59634534	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6867103	0.87[CEU][hapmap];0.83[EUR][1000 genomes]
rs6867442	0.93[CEU][hapmap];0.83[EUR][1000 genomes]
rs6867465	0.92[CEU][hapmap];0.83[EUR][1000 genomes]
rs6867644	0.92[CEU][hapmap];0.83[EUR][1000 genomes]
rs6877403	0.80[ASN][1000 genomes]
rs6881456	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6889393	0.83[EUR][1000 genomes]
rs6892704	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6898956	0.80[ASN][1000 genomes]
rs732235	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs732236	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs768528	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7711776	0.85[CEU][hapmap];0.84[YRI][hapmap]
rs7713606	0.94[EUR][1000 genomes]
rs7717705	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7722601	0.90[ASN][1000 genomes]
rs7732912	0.81[EUR][1000 genomes]
rs9285909	0.89[AFR][1000 genomes]
rs9327457	0.85[JPT][hapmap]
rs9327458	0.95[JPT][hapmap];0.93[YRI][hapmap];0.89[AFR][1000 genomes]
rs9327460	0.92[CEU][hapmap];0.83[EUR][1000 genomes]
rs9327461	0.82[EUR][1000 genomes]
rs9327462	0.85[CEU][hapmap]

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	nsv1033607	chr5:126385181-127304459	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised 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	25 gene(s)	inside rSNPs	diseases
2	nsv1021483	chr5:126927834-127304873	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:127267400-127292200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
2	chr5:127269800-127292400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr5:127271200-127294800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr5:127274400-127287000	Weak transcription	Primary T cells from cord blood	blood
5	chr5:127274800-127295000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr5:127274800-127296000	Weak transcription	Primary B cells from cord blood	blood
7	chr5:127276600-127281800	Enhancers	A549	lung
8	chr5:127278400-127281800	Weak transcription	Rectal Mucosa Donor 29	rectum
9	chr5:127278400-127283000	Weak transcription	HMEC	breast
10	chr5:127278400-127286400	Weak transcription	Fetal Intestine Large	intestine
11	chr5:127278400-127286400	Weak transcription	Rectal Mucosa Donor 31	rectum
12	chr5:127278400-127292800	Weak transcription	Brain Inferior Temporal Lobe	brain
13	chr5:127278400-127292800	Weak transcription	Brain Substantia Nigra	brain
14	chr5:127278400-127292800	Weak transcription	HSMM	muscle
15	chr5:127278400-127294600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
16	chr5:127278400-127295600	Weak transcription	HSMMtube	muscle
17	chr5:127280200-127292800	Weak transcription	Gastric	stomach
18	chr5:127281600-127283600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
19	chr5:127281600-127286400	Weak transcription	Fetal Intestine Small	intestine

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