Variant report

Variant	rs1054724
Chromosome Location	chr5:111499732-111499733
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:111008689..111010998-chr5:111497421..111499874,3	MCF-7	breast:
2	chr5:111499476..111503077-chr5:111510420..111514419,5	MCF-7	breast:
3	chr5:111100842..111103505-chr5:111497212..111499866,2	MCF-7	breast:

Extended variants
information (count: 109 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:103)

rs_ID	r²[population]
rs10037824	1.00[ASN][1000 genomes]
rs10040749	0.92[CEU][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];0.86[MEX][hapmap];0.86[TSI][hapmap];0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10054560	1.00[ASN][1000 genomes]
rs10054719	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10065740	1.00[ASN][1000 genomes]
rs10068493	1.00[ASN][1000 genomes]
rs10068536	1.00[YRI][hapmap]
rs10069011	1.00[ASN][1000 genomes]
rs10070995	0.96[CEU][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1020951	0.96[CEU][hapmap];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10463433	1.00[ASN][1000 genomes]
rs10477478	1.00[ASN][1000 genomes]
rs10478073	1.00[ASN][1000 genomes]
rs1078128	1.00[ASN][1000 genomes]
rs11241153	1.00[ASN][1000 genomes]
rs12186685	1.00[CHD][hapmap];1.00[ASN][1000 genomes]
rs12188700	1.00[ASN][1000 genomes]
rs12189034	1.00[CHD][hapmap];1.00[ASN][1000 genomes]
rs13153601	1.00[ASN][1000 genomes]
rs1366144	1.00[ASN][1000 genomes]
rs1427978	1.00[ASN][1000 genomes]
rs1560052	0.95[CEU][hapmap];0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1560053	1.00[ASN][1000 genomes]
rs1560054	1.00[CHD][hapmap];1.00[ASN][1000 genomes]
rs1560055	1.00[ASN][1000 genomes]
rs1560057	1.00[ASN][1000 genomes]
rs1560058	1.00[ASN][1000 genomes]
rs1560061	1.00[CHD][hapmap]
rs17134319	1.00[ASN][1000 genomes]
rs17134348	1.00[ASN][1000 genomes]
rs17271934	1.00[CHD][hapmap]
rs1896620	1.00[ASN][1000 genomes]
rs1896621	1.00[ASN][1000 genomes]
rs1975015	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2114991	0.96[CEU][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];0.86[MEX][hapmap];0.88[TSI][hapmap];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2416277	1.00[ASN][1000 genomes]
rs27413	1.00[ASN][1000 genomes]
rs4602685	1.00[CHD][hapmap];1.00[ASN][1000 genomes]
rs4957632	1.00[ASN][1000 genomes]
rs4957634	1.00[ASN][1000 genomes]
rs4957636	1.00[ASN][1000 genomes]
rs4958002	1.00[ASN][1000 genomes]
rs4958003	1.00[ASN][1000 genomes]
rs4958004	1.00[ASN][1000 genomes]
rs4958009	1.00[ASN][1000 genomes]
rs4958010	1.00[CHD][hapmap];1.00[ASN][1000 genomes]
rs4958012	1.00[ASN][1000 genomes]
rs4958013	1.00[ASN][1000 genomes]
rs4958014	1.00[ASN][1000 genomes]
rs4958015	1.00[ASN][1000 genomes]
rs4958020	1.00[ASN][1000 genomes]
rs4958025	1.00[CHD][hapmap];1.00[ASN][1000 genomes]
rs55639430	1.00[ASN][1000 genomes]
rs55796748	1.00[ASN][1000 genomes]
rs55829200	1.00[ASN][1000 genomes]
rs55913426	1.00[ASN][1000 genomes]
rs56108405	1.00[ASN][1000 genomes]
rs56288086	1.00[ASN][1000 genomes]
rs56293447	1.00[ASN][1000 genomes]
rs56881711	1.00[ASN][1000 genomes]
rs57428532	1.00[ASN][1000 genomes]
rs59537089	1.00[ASN][1000 genomes]
rs60636568	1.00[ASN][1000 genomes]
rs61061658	1.00[ASN][1000 genomes]
rs62367266	1.00[ASN][1000 genomes]
rs62372421	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6594566	0.82[ASW][hapmap];0.96[CEU][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];0.82[LWK][hapmap];0.93[MEX][hapmap];0.97[MKK][hapmap];0.90[TSI][hapmap];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6594567	0.96[CEU][hapmap];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6594569	1.00[ASN][1000 genomes]
rs6594571	1.00[ASN][1000 genomes]
rs6594574	1.00[ASN][1000 genomes]
rs6594577	1.00[ASN][1000 genomes]
rs6594588	1.00[CHD][hapmap];1.00[ASN][1000 genomes]
rs66892745	1.00[ASN][1000 genomes]
rs67586008	1.00[ASN][1000 genomes]
rs67631852	1.00[ASN][1000 genomes]
rs6863063	1.00[ASN][1000 genomes]
rs6872947	0.96[CEU][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];0.88[TSI][hapmap];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6876893	1.00[CHD][hapmap];1.00[ASN][1000 genomes]
rs6878423	1.00[CHD][hapmap];1.00[ASN][1000 genomes]
rs6884589	1.00[ASN][1000 genomes]
rs6893877	1.00[CHD][hapmap]
rs6894036	1.00[CHD][hapmap]
rs72781655	1.00[ASN][1000 genomes]
rs72781664	1.00[ASN][1000 genomes]
rs72781668	1.00[ASN][1000 genomes]
rs72781677	1.00[ASN][1000 genomes]
rs72781678	1.00[ASN][1000 genomes]
rs7703522	0.96[CEU][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];0.86[MEX][hapmap];0.88[TSI][hapmap];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7704087	1.00[ASN][1000 genomes]
rs7706160	1.00[ASN][1000 genomes]
rs7709484	1.00[ASN][1000 genomes]
rs7710973	1.00[ASN][1000 genomes]
rs7711158	1.00[ASN][1000 genomes]
rs7716309	1.00[ASN][1000 genomes]
rs7717160	0.96[CEU][hapmap];1.00[CHD][hapmap];0.86[GIH][hapmap];0.80[MEX][hapmap];0.86[TSI][hapmap];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7717363	1.00[ASN][1000 genomes]
rs7719346	1.00[CHD][hapmap];1.00[ASN][1000 genomes]
rs7722291	1.00[ASN][1000 genomes]
rs821736	1.00[CHD][hapmap];1.00[ASN][1000 genomes]
rs821749	1.00[CHD][hapmap];1.00[ASN][1000 genomes]
rs890757	1.00[ASN][1000 genomes]
rs890758	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv599367	chr5:110924280-111602713	Enhancers Weak transcription Genic enhancers Strong transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
2	nsv1015302	chr5:111339022-111802947	Enhancers Active TSS Strong transcription Weak transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
3	nsv537861	chr5:111339022-111802947	Strong transcription Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
4	nsv599368	chr5:111399885-112032675	Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
5	nsv948869	chr5:111476404-111695183	Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
6	nsv531291	chr5:111497440-111756788	Enhancers Flanking Active TSS Genic enhancers Active TSS Weak transcription ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:111497400-111500000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr5:111497600-111499800	Transcr. at gene 5' and 3'	Foreskin Fibroblast Primary Cells skin01	Skin
3	chr5:111497600-111500400	Weak transcription	Stomach Mucosa	stomach
4	chr5:111497600-111501400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr5:111497600-111502000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr5:111497600-111502000	Weak transcription	Aorta	Aorta
7	chr5:111497600-111538600	Weak transcription	Small Intestine	intestine
8	chr5:111497800-111500000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr5:111497800-111504400	Weak transcription	Placenta Amnion	Placenta Amnion
10	chr5:111497800-111505000	Strong transcription	Primary T cells fromperipheralblood	blood
11	chr5:111497800-111505000	Strong transcription	Fetal Muscle Trunk	muscle
12	chr5:111498000-111502600	Strong transcription	Primary monocytes fromperipheralblood	blood
13	chr5:111498000-111503600	Strong transcription	Monocytes-CD14+_RO01746	blood
14	chr5:111498000-111504800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
15	chr5:111498000-111504800	Strong transcription	Fetal Thymus	thymus
16	chr5:111498000-111505600	Strong transcription	Fetal Muscle Leg	muscle
17	chr5:111498000-111505600	Strong transcription	Placenta	Placenta
18	chr5:111498200-111499800	Genic enhancers	Fetal Heart	heart
19	chr5:111498200-111499800	Strong transcription	Rectal Smooth Muscle	rectum
20	chr5:111498200-111500200	Genic enhancers	ES-I3 Cell Line	embryonic stem cell
21	chr5:111498200-111500600	Strong transcription	iPS DF 6.9 Cell Line	embryonic stem cell
22	chr5:111498200-111502200	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
23	chr5:111498200-111502600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
24	chr5:111498200-111502800	Strong transcription	Ovary	ovary
25	chr5:111498200-111502800	Strong transcription	HSMM	muscle
26	chr5:111498200-111504800	Strong transcription	Fetal Intestine Large	intestine
27	chr5:111498200-111504800	Strong transcription	Sigmoid Colon	Sigmoid Colon
28	chr5:111498200-111505000	Strong transcription	Rectal Mucosa Donor 29	rectum
29	chr5:111498200-111505600	Strong transcription	Stomach Smooth Muscle	stomach
30	chr5:111498200-111518800	Weak transcription	Right Atrium	heart
31	chr5:111498400-111500200	Strong transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr5:111498400-111500400	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
33	chr5:111498400-111500600	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
34	chr5:111498400-111500600	Strong transcription	Colonic Mucosa	Colon
35	chr5:111498400-111500600	Strong transcription	Gastric	stomach
36	chr5:111498400-111501000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
37	chr5:111498400-111501600	Strong transcription	NHDF-Ad	bronchial
38	chr5:111498400-111501800	Strong transcription	Rectal Mucosa Donor 31	rectum
39	chr5:111498400-111502600	Strong transcription	HSMMtube	muscle
40	chr5:111498400-111502800	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
41	chr5:111498400-111502800	Strong transcription	Brain Germinal Matrix	brain
42	chr5:111498400-111503600	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
43	chr5:111498400-111504800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
44	chr5:111498400-111504800	Strong transcription	Skeletal Muscle Male	skeletal muscle
45	chr5:111498400-111506000	Strong transcription	Left Ventricle	heart
46	chr5:111498400-111506400	Strong transcription	Fetal Kidney	kidney
47	chr5:111498400-111506800	Strong transcription	Adipose Nuclei	Adipose
48	chr5:111498600-111499800	Strong transcription	Primary T helper memory cells from peripheral blood 1	blood
49	chr5:111498600-111499800	Genic enhancers	HUVEC	blood vessel
50	chr5:111498600-111500400	Strong transcription	Brain Substantia Nigra	brain

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