Variant report

Variant	rs1555731
Chromosome Location	chr13:79951833-79951834
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:79949599..79952196-chr13:79952823..79955805,2	MCF-7	breast:
2	chr13:79944448..79946891-chr13:79951431..79952941,2	MCF-7	breast:

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

rSNPs within LD-proxies of this variant (count:74)

rs_ID	r²[population]
rs1324872	1.00[AMR][1000 genomes]
rs1328043	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1328044	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1328045	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1335376	1.00[AMR][1000 genomes]
rs1359411	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1408655	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1410330	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1410331	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1410333	0.84[AFR][1000 genomes]
rs1571322	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1590466	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1749987	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1752645	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1853721	1.00[AMR][1000 genomes]
rs1856995	1.00[AMR][1000 genomes]
rs1885817	1.00[AMR][1000 genomes]
rs1980882	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2147567	1.00[AMR][1000 genomes]
rs2265032	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2484341	1.00[AMR][1000 genomes]
rs2484342	1.00[AMR][1000 genomes]
rs2760110	1.00[AMR][1000 genomes]
rs2765081	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2783128	1.00[AMR][1000 genomes]
rs2991462	1.00[AMR][1000 genomes]
rs314691	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs314696	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs314697	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs314698	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs314699	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs3861140	1.00[ASN][1000 genomes]
rs4052508	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs418177	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4300513	1.00[AMR][1000 genomes]
rs450755	1.00[AMR][1000 genomes]
rs4884128	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4885630	1.00[AMR][1000 genomes]
rs6563092	1.00[AMR][1000 genomes]
rs6563099	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6563101	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6563102	1.00[AMR][1000 genomes]
rs6563103	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6563106	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6563108	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6563118	1.00[AMR][1000 genomes]
rs7324585	1.00[AMR][1000 genomes]
rs7325232	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7326625	1.00[ASN][1000 genomes]
rs7333651	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7334029	1.00[AMR][1000 genomes]
rs7334978	1.00[ASN][1000 genomes]
rs73566469	1.00[ASN][1000 genomes]
rs7993115	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7993478	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7994560	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7996740	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7996869	1.00[AMR][1000 genomes]
rs7998224	1.00[AMR][1000 genomes]
rs8001089	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs8001822	1.00[AMR][1000 genomes]
rs927696	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9318630	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9318631	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9318637	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9530903	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9545056	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9545084	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9545096	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9545102	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9545105	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9545107	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9545111	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9601212	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv900586	chr13:79892722-79968467	Weak transcription Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv900587	chr13:79894736-79956691	Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv832657	chr13:79904978-80099108	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:79893200-79957800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr13:79941800-79956600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
3	chr13:79942000-79967400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr13:79943000-79957800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr13:79946000-79960000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr13:79946400-79969200	Weak transcription	Fetal Kidney	kidney
7	chr13:79946800-79954600	Weak transcription	Colonic Mucosa	Colon
8	chr13:79947800-79952400	Strong transcription	HUES6 Cell Line	embryonic stem cell
9	chr13:79947800-79952600	Strong transcription	HUES64 Cell Line	embryonic stem cell
10	chr13:79947800-79952600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
11	chr13:79947800-79952600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr13:79947800-79952800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr13:79947800-79953200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
14	chr13:79947800-79953200	Strong transcription	Monocytes-CD14+_RO01746	blood
15	chr13:79947800-79953400	Strong transcription	GM12878-XiMat	blood
16	chr13:79947800-79953600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr13:79947800-79953600	Strong transcription	Primary monocytes fromperipheralblood	blood
18	chr13:79947800-79954200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr13:79947800-79954400	Strong transcription	Primary B cells from peripheral blood	blood
20	chr13:79947800-79955600	Strong transcription	Dnd41	blood
21	chr13:79948000-79952200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
22	chr13:79948000-79952400	Strong transcription	Duodenum Mucosa	Duodenum
23	chr13:79948000-79952400	Strong transcription	Duodenum Smooth Muscle	Duodenum
24	chr13:79948000-79952400	Strong transcription	Fetal Lung	lung
25	chr13:79948000-79952400	Strong transcription	Rectal Mucosa Donor 29	rectum
26	chr13:79948000-79952400	Strong transcription	Skeletal Muscle Male	skeletal muscle
27	chr13:79948000-79952400	Strong transcription	Skeletal Muscle Female	skeletal muscle
28	chr13:79948000-79952400	Strong transcription	Osteobl	bone
29	chr13:79948000-79952600	Strong transcription	Primary T cells from cord blood	blood
30	chr13:79948000-79952600	Strong transcription	Primary hematopoietic stem cells	blood
31	chr13:79948000-79952600	Strong transcription	Primary T helper cells PMA-I stimulated	--
32	chr13:79948000-79952800	Strong transcription	Primary T cells fromperipheralblood	blood
33	chr13:79948000-79952800	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
34	chr13:79948000-79953000	Strong transcription	Primary T helper naive cells from peripheral blood	blood
35	chr13:79948000-79953000	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
36	chr13:79948000-79953200	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
37	chr13:79948000-79953200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
38	chr13:79948000-79953200	Strong transcription	Fetal Thymus	thymus
39	chr13:79948000-79953200	Strong transcription	HSMM	muscle
40	chr13:79948000-79953400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
41	chr13:79948000-79954400	Strong transcription	Primary B cells from cord blood	blood
42	chr13:79948200-79952400	Strong transcription	Primary T killer naive cells fromperipheralblood	blood
43	chr13:79948200-79952400	Strong transcription	Fetal Brain Female	brain
44	chr13:79948200-79952400	Strong transcription	Sigmoid Colon	Sigmoid Colon
45	chr13:79948200-79952800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
46	chr13:79948200-79952800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
47	chr13:79948200-79952800	Strong transcription	Fetal Stomach	stomach
48	chr13:79948200-79953000	Strong transcription	Liver	Liver
49	chr13:79948200-79953000	Strong transcription	Fetal Muscle Trunk	muscle
50	chr13:79948200-79953000	Strong transcription	Fetal Muscle Leg	muscle

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