Variant report

Variant	rs28582911
Chromosome Location	chr15:50729629-50729630
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:50645795..50649183-chr15:50728971..50730974,3	MCF-7	breast:
2	chr15:50728047..50730000-chr15:50733480..50736822,3	MCF-7	breast:
3	chr15:50714855..50718759-chr15:50728296..50731650,9	MCF-7	breast:
4	chr15:50645588..50649349-chr15:50728196..50732461,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000244879	Chromatin interaction
ENSG00000104064	Chromatin interaction
ENSG00000138592	Chromatin interaction

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10152326	0.82[ASN][1000 genomes]
rs11070776	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12593481	0.83[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2289108	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3098167	0.87[AFR][1000 genomes];0.84[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs3098168	0.80[AFR][1000 genomes]
rs3098169	0.90[AFR][1000 genomes];0.85[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs3098171	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3098174	0.82[EUR][1000 genomes]
rs3098177	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3098179	0.80[AMR][1000 genomes]
rs3098205	0.84[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs3131559	0.82[EUR][1000 genomes]
rs3131560	0.83[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs3131562	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3131566	0.88[AFR][1000 genomes];0.83[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs3131568	0.94[AFR][1000 genomes];0.85[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs3131574	0.83[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs4318151	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs56398519	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7174015	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs8026653	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1045456	chr15:50592472-51019873	Strong transcription Weak transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Enhancers ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	121 gene(s)	inside rSNPs	diseases
2	nsv948579	chr15:50645530-51045564	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	119 gene(s)	inside rSNPs	diseases
3	nsv524613	chr15:50656449-50868779	Strong transcription Enhancers Weak transcription Active TSS Genic enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
4	nsv904210	chr15:50702058-50786024	Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
5	nsv1040717	chr15:50715572-50846521	Strong transcription Genic enhancers Weak transcription Enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
6	nsv1053966	chr15:50715572-51133186	Flanking Active TSS Weak transcription Strong transcription Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	65 gene(s)	inside rSNPs	diseases
7	nsv542383	chr15:50715572-51133186	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	65 gene(s)	inside rSNPs	diseases
8	nsv1043805	chr15:50715572-51208891	Genic enhancers Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	82 gene(s)	inside rSNPs	diseases
9	nsv542384	chr15:50715572-51208891	Strong transcription Flanking Active TSS Weak transcription Enhancers Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	82 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:50717400-50747000	Weak transcription	Aorta	Aorta
2	chr15:50717600-50764600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr15:50717600-50774800	Weak transcription	Stomach Mucosa	stomach
4	chr15:50717800-50731200	Weak transcription	Fetal Brain Female	brain
5	chr15:50717800-50731200	Weak transcription	Fetal Kidney	kidney
6	chr15:50717800-50731600	Weak transcription	H1 Cell Line	embryonic stem cell
7	chr15:50717800-50731600	Weak transcription	Rectal Mucosa Donor 31	rectum
8	chr15:50717800-50732000	Weak transcription	Small Intestine	intestine
9	chr15:50717800-50732200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr15:50717800-50732200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
11	chr15:50717800-50732200	Weak transcription	Brain Cingulate Gyrus	brain
12	chr15:50717800-50732200	Weak transcription	Brain Inferior Temporal Lobe	brain
13	chr15:50717800-50732200	Weak transcription	HSMMtube	muscle
14	chr15:50717800-50732200	Weak transcription	NHLF	lung
15	chr15:50717800-50732400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
16	chr15:50717800-50738600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr15:50717800-50758800	Weak transcription	H9 Cell Line	embryonic stem cell
18	chr15:50718000-50731200	Weak transcription	Brain Anterior Caudate	brain
19	chr15:50718000-50732200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
20	chr15:50718000-50734600	Weak transcription	Brain Substantia Nigra	brain
21	chr15:50718000-50755400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
22	chr15:50718000-50757000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
23	chr15:50718200-50730800	Weak transcription	HUES6 Cell Line	embryonic stem cell
24	chr15:50718200-50731400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
25	chr15:50718200-50731400	Weak transcription	Fetal Thymus	thymus
26	chr15:50718200-50731600	Weak transcription	Cortex derived primary cultured neurospheres	brain
27	chr15:50718200-50731600	Weak transcription	Fetal Muscle Leg	muscle
28	chr15:50718200-50732200	Weak transcription	Stomach Smooth Muscle	stomach
29	chr15:50718400-50740400	Weak transcription	Fetal Heart	heart
30	chr15:50718800-50731200	Weak transcription	Adipose Nuclei	Adipose
31	chr15:50718800-50732200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
32	chr15:50718800-50732200	Weak transcription	HUVEC	blood vessel
33	chr15:50719000-50734400	Weak transcription	Brain Hippocampus Middle	brain
34	chr15:50719200-50732200	Weak transcription	Primary hematopoietic stem cells	blood
35	chr15:50719400-50731800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
36	chr15:50719600-50729800	Weak transcription	K562	blood
37	chr15:50719600-50730600	Weak transcription	HSMM	muscle
38	chr15:50719600-50732400	Weak transcription	Brain Angular Gyrus	brain
39	chr15:50719600-50732400	Weak transcription	Fetal Brain Male	brain
40	chr15:50720600-50730400	Weak transcription	Fetal Stomach	stomach
41	chr15:50721200-50732200	Weak transcription	HMEC	breast
42	chr15:50721400-50731600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
43	chr15:50721400-50732200	Weak transcription	Ovary	ovary
44	chr15:50721400-50732600	Weak transcription	GM12878-XiMat	blood
45	chr15:50721800-50732200	Weak transcription	Brain Germinal Matrix	brain
46	chr15:50721800-50732400	Weak transcription	Rectal Smooth Muscle	rectum
47	chr15:50722800-50764600	Weak transcription	Esophagus	oesophagus
48	chr15:50723200-50731200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
49	chr15:50723200-50731400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
50	chr15:50723200-50734400	Weak transcription	Psoas Muscle	Psoas

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