Variant report

Variant	rs12901603
Chromosome Location	chr15:74295198-74295199
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	chr15:74282696..74285036-chr15:74293067..74295399,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000067221	Chromatin interaction

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10162627	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1052242	0.82[AMR][1000 genomes]
rs1052246	0.82[AMR][1000 genomes]
rs10851868	0.82[AMR][1000 genomes]
rs11072461	0.81[AMR][1000 genomes]
rs11072462	0.81[AMR][1000 genomes]
rs11072463	0.81[AMR][1000 genomes]
rs11072464	0.85[AFR][1000 genomes];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11072465	0.96[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11072466	0.96[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11072467	0.96[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11072469	0.95[AMR][1000 genomes];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11633520	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11635930	0.81[AMR][1000 genomes]
rs11636016	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11636065	0.82[AMR][1000 genomes]
rs11636150	0.83[AMR][1000 genomes]
rs11857498	0.81[AMR][1000 genomes]
rs12592370	0.96[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12593528	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12902857	0.82[AMR][1000 genomes]
rs12904213	0.97[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12908748	0.82[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12911807	0.81[AMR][1000 genomes]
rs12912395	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12917179	0.94[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2277599	0.83[AMR][1000 genomes]
rs2304715	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2304717	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2304718	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3784561	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs3784562	0.87[EUR][1000 genomes]
rs4886820	0.83[AMR][1000 genomes]
rs4886844	0.97[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4886845	0.80[AMR][1000 genomes]
rs4886846	0.84[AMR][1000 genomes]
rs56194867	0.81[AMR][1000 genomes]
rs743581	0.80[ASN][1000 genomes]
rs8027327	0.82[AMR][1000 genomes]
rs8027447	0.83[AMR][1000 genomes]
rs8027774	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8028557	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs8038991	0.81[AMR][1000 genomes]
rs8039276	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8043489	0.86[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758387	chr15:74215114-74464916	Enhancers Flanking Active TSS Bivalent/Poised TSS Weak transcription Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
2	esv2760040	chr15:74215114-74464916	Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
3	nsv428308	chr15:74215114-74464916	Transcr. at gene 5' and 3' Enhancers Weak transcription Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
4	nsv833052	chr15:74250378-74377150	Genic enhancers Enhancers Transcr. at gene 5' and 3' Strong transcription Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
5	nsv518316	chr15:74290993-74331083	Strong transcription Weak transcription Enhancers Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
6	nsv469619	chr15:74291859-74466321	Enhancers Weak transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
7	nsv482362	chr15:74291859-74466321	Strong transcription Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 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	chr15:74288200-74301800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr15:74288200-74303000	Weak transcription	A549	lung
3	chr15:74288200-74303800	Weak transcription	Brain Angular Gyrus	brain
4	chr15:74288200-74331000	Weak transcription	Fetal Heart	heart
5	chr15:74289600-74302400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr15:74289800-74296000	Genic enhancers	Primary T helper cells fromperipheralblood	blood
7	chr15:74289800-74303200	Weak transcription	Brain Substantia Nigra	brain
8	chr15:74289800-74331000	Weak transcription	Pancreatic Islets	Pancreatic Islet
9	chr15:74290000-74295200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr15:74290000-74299000	Weak transcription	Stomach Mucosa	stomach
11	chr15:74290000-74303400	Weak transcription	Fetal Kidney	kidney
12	chr15:74290000-74314800	Weak transcription	Brain Cingulate Gyrus	brain
13	chr15:74290200-74298200	Weak transcription	HepG2	liver
14	chr15:74290400-74299000	Strong transcription	Fetal Thymus	thymus
15	chr15:74290600-74296800	Strong transcription	Fetal Lung	lung
16	chr15:74290600-74298800	Strong transcription	Primary monocytes fromperipheralblood	blood
17	chr15:74290800-74301600	Strong transcription	Monocytes-CD14+_RO01746	blood
18	chr15:74291000-74295200	Weak transcription	Esophagus	oesophagus
19	chr15:74291000-74296400	Weak transcription	Ovary	ovary
20	chr15:74291000-74297000	Strong transcription	Sigmoid Colon	Sigmoid Colon
21	chr15:74291000-74298200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
22	chr15:74291000-74298200	Weak transcription	Small Intestine	intestine
23	chr15:74291000-74299000	Weak transcription	Gastric	stomach
24	chr15:74291000-74299000	Weak transcription	Right Ventricle	heart
25	chr15:74291000-74299200	Weak transcription	Pancreas	Pancrea
26	chr15:74291000-74299800	Strong transcription	Fetal Muscle Leg	muscle
27	chr15:74291000-74300000	Weak transcription	Aorta	Aorta
28	chr15:74291000-74311200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
29	chr15:74291000-74314800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr15:74291000-74315000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
31	chr15:74291000-74315200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
32	chr15:74291200-74295200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
33	chr15:74291200-74296200	Weak transcription	Brain Germinal Matrix	brain
34	chr15:74291200-74298000	Weak transcription	Spleen	Spleen
35	chr15:74291200-74299000	Weak transcription	Psoas Muscle	Psoas
36	chr15:74291200-74299200	Weak transcription	Colonic Mucosa	Colon
37	chr15:74291400-74298000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
38	chr15:74291400-74300000	Weak transcription	Placenta Amnion	Placenta Amnion
39	chr15:74291600-74295200	Weak transcription	Fetal Muscle Trunk	muscle
40	chr15:74291600-74295800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
41	chr15:74291600-74296200	Weak transcription	Skeletal Muscle Male	skeletal muscle
42	chr15:74291600-74298000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
43	chr15:74291600-74300200	Weak transcription	Brain Anterior Caudate	brain
44	chr15:74291800-74296000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
45	chr15:74291800-74296400	Strong transcription	Fetal Stomach	stomach
46	chr15:74291800-74296600	Strong transcription	Dnd41	blood
47	chr15:74291800-74298200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
48	chr15:74291800-74299600	Weak transcription	Rectal Mucosa Donor 31	rectum
49	chr15:74291800-74314800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
50	chr15:74292000-74295200	Weak transcription	HUES6 Cell Line	embryonic stem cell

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