Variant report

Variant	rs7402977
Chromosome Location	chr15:31726824-31726825
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	chr15:31616708..31620581-chr15:31726270..31733622,8	MCF-7	breast:

Variant related genes	Relation type
ENSG00000169926	Chromatin interaction

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10083664	1.00[ASN][1000 genomes]
rs10083682	1.00[ASN][1000 genomes]
rs10459614	0.91[ASN][1000 genomes]
rs10851544	0.90[ASN][1000 genomes]
rs10851545	0.90[ASN][1000 genomes]
rs11630067	0.96[ASN][1000 genomes]
rs11630485	0.96[ASN][1000 genomes]
rs11631345	0.90[ASN][1000 genomes]
rs11634484	1.00[ASN][1000 genomes]
rs11636300	0.88[ASN][1000 genomes]
rs11638964	0.98[ASN][1000 genomes]
rs12441543	0.96[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs12441765	0.89[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12594811	0.95[ASN][1000 genomes]
rs12899540	0.92[ASN][1000 genomes]
rs12902234	0.87[CHB][hapmap];0.90[JPT][hapmap]
rs12910502	0.96[ASN][1000 genomes]
rs12912800	0.84[CHB][hapmap]
rs34482222	0.90[ASN][1000 genomes]
rs4346167	0.98[ASN][1000 genomes]
rs4558376	0.95[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs4606678	0.91[CHB][hapmap];0.94[JPT][hapmap];0.90[ASN][1000 genomes]
rs4613031	0.90[ASN][1000 genomes]
rs4779525	0.84[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs4779526	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6493652	0.96[ASN][1000 genomes]
rs7165900	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7170922	0.98[ASN][1000 genomes]
rs7171667	0.88[ASN][1000 genomes]
rs7174902	0.94[ASN][1000 genomes]
rs7403010	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7496920	0.96[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs8027155	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs8030771	0.94[ASN][1000 genomes]
rs8035633	0.96[ASN][1000 genomes]
rs8043195	0.95[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs9744263	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1054147	chr15:31014507-31972706	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	87 gene(s)	inside rSNPs	diseases
2	nsv542306	chr15:31014507-31972706	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	87 gene(s)	inside rSNPs	diseases
3	nsv932896	chr15:31292475-31730445	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	59 gene(s)	inside rSNPs	diseases
4	esv34100	chr15:31496514-31792591	Active TSS Enhancers ZNF genes & repeats Weak transcription Genic enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
5	nsv903840	chr15:31589970-31800149	Weak transcription Transcr. at gene 5' and 3' Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:76 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:31712800-31732800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr15:31724000-31727000	Enhancers	Fetal Thymus	thymus
3	chr15:31725200-31728200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr15:31725400-31729000	Enhancers	Lung	lung
5	chr15:31725600-31727000	Enhancers	Primary hematopoietic stem cells	blood
6	chr15:31725600-31727000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr15:31725600-31727000	Enhancers	NHDF-Ad	bronchial
8	chr15:31725600-31728800	Enhancers	Esophagus	oesophagus
9	chr15:31725800-31727000	Weak transcription	HMEC	breast
10	chr15:31726000-31731200	Enhancers	Spleen	Spleen
11	chr15:31726200-31727000	Bivalent Enhancer	Fetal Muscle Trunk	muscle
12	chr15:31726200-31727200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr15:31726200-31727200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr15:31726200-31728600	Bivalent Enhancer	Fetal Muscle Leg	muscle
15	chr15:31726400-31727000	Enhancers	Primary B cells from cord blood	blood
16	chr15:31726400-31727000	Enhancers	Primary B cells from peripheral blood	blood
17	chr15:31726400-31727000	Enhancers	Adipose Nuclei	Adipose
18	chr15:31726400-31727000	Enhancers	NHLF	lung
19	chr15:31726400-31727400	Enhancers	Stomach Mucosa	stomach
20	chr15:31726400-31727800	Flanking Active TSS	Primary T killer memory cells from peripheral blood	blood
21	chr15:31726400-31727800	Enhancers	Pancreas	Pancrea
22	chr15:31726400-31728000	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
23	chr15:31726400-31728000	Enhancers	Placenta	Placenta
24	chr15:31726400-31728200	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
25	chr15:31726400-31728200	Flanking Active TSS	Primary T helper memory cells from peripheral blood 1	blood
26	chr15:31726400-31728400	Flanking Active TSS	Primary T helper 17 cells PMA-I stimulated	--
27	chr15:31726400-31728600	Flanking Active TSS	GM12878-XiMat	blood
28	chr15:31726400-31728800	Enhancers	Sigmoid Colon	Sigmoid Colon
29	chr15:31726400-31728800	Enhancers	Small Intestine	intestine
30	chr15:31726600-31727200	Flanking Active TSS	Duodenum Mucosa	Duodenum
31	chr15:31726600-31727200	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
32	chr15:31726600-31727400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
33	chr15:31726600-31727400	Enhancers	Skeletal Muscle Male	skeletal muscle
34	chr15:31726600-31727400	Enhancers	Skeletal Muscle Female	skeletal muscle
35	chr15:31726600-31727400	Enhancers	Stomach Smooth Muscle	stomach
36	chr15:31726600-31728000	Flanking Active TSS	Primary Natural Killer cells fromperipheralblood	blood
37	chr15:31726600-31728000	Flanking Active TSS	Osteobl	bone
38	chr15:31726600-31728200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
39	chr15:31726600-31728200	Flanking Active TSS	Primary T cells from cord blood	blood
40	chr15:31726600-31728600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
41	chr15:31726600-31728800	Flanking Active TSS	Dnd41	blood
42	chr15:31726600-31729000	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
43	chr15:31726800-31727000	Flanking Active TSS	Primary mononuclear cells fromperipheralblood	Blood
44	chr15:31726800-31727200	Flanking Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
45	chr15:31726800-31727200	Active TSS	Brain Hippocampus Middle	brain
46	chr15:31726800-31727200	Flanking Active TSS	Colonic Mucosa	Colon
47	chr15:31726800-31727400	Bivalent Enhancer	Fetal Stomach	stomach
48	chr15:31726800-31727400	Enhancers	Right Atrium	heart
49	chr15:31726800-31727400	Enhancers	Right Ventricle	heart
50	chr15:31726800-31727600	Enhancers	Breast Myoepithelial Primary Cells	Breast

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