Variant report

Variant	rs3088312
Chromosome Location	chr15:52013170-52013171
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:52010154..52013648-chr15:52016687..52020314,4	MCF-7	breast:
2	chr15:52002992..52006343-chr15:52011753..52015104,3	K562	blood:
3	chr15:52007487..52009839-chr15:52012657..52014790,2	MCF-7	breast:
4	chr15:52012107..52014032-chr15:52023388..52025681,2	K562	blood:
5	chr15:52013040..52016397-chr15:52016962..52020800,6	K562	blood:

Extended variants
information (count: 106 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:105)

rs_ID	r²[population]
rs1001690	0.89[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs10444823	0.82[AMR][1000 genomes]
rs10444824	0.84[EUR][1000 genomes]
rs10444825	0.85[EUR][1000 genomes]
rs10775145	0.81[AMR][1000 genomes]
rs11070865	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11070866	0.92[EUR][1000 genomes]
rs11070867	0.92[EUR][1000 genomes]
rs11070868	0.86[EUR][1000 genomes]
rs11070869	0.86[EUR][1000 genomes]
rs11630084	0.86[AMR][1000 genomes]
rs11630579	0.83[EUR][1000 genomes]
rs11630943	0.86[EUR][1000 genomes]
rs11631858	0.82[EUR][1000 genomes]
rs11632106	0.85[AMR][1000 genomes]
rs11636345	0.82[AMR][1000 genomes]
rs11636869	0.81[EUR][1000 genomes]
rs11637876	0.82[EUR][1000 genomes]
rs11638766	0.86[AMR][1000 genomes]
rs11638820	0.86[AMR][1000 genomes]
rs12050524	0.82[EUR][1000 genomes]
rs12903500	0.94[EUR][1000 genomes]
rs12903707	0.82[AMR][1000 genomes]
rs12904413	0.86[EUR][1000 genomes]
rs12904900	0.86[EUR][1000 genomes]
rs12905283	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12912928	0.81[EUR][1000 genomes]
rs12913583	0.82[EUR][1000 genomes]
rs1350174	0.82[AMR][1000 genomes]
rs1545602	0.86[AMR][1000 genomes]
rs17526463	0.83[EUR][1000 genomes]
rs17610862	0.86[EUR][1000 genomes]
rs17611193	0.83[EUR][1000 genomes]
rs1840708	0.90[EUR][1000 genomes]
rs1863430	0.82[EUR][1000 genomes]
rs1902430	0.82[AMR][1000 genomes]
rs2010026	0.88[EUR][1000 genomes]
rs2034856	0.86[EUR][1000 genomes]
rs2034857	0.82[AMR][1000 genomes]
rs2034858	0.82[AMR][1000 genomes]
rs2077743	0.82[AMR][1000 genomes]
rs2414117	0.82[AMR][1000 genomes]
rs2554314	0.82[EUR][1000 genomes]
rs28699115	0.96[EUR][1000 genomes]
rs34504520	0.85[EUR][1000 genomes]
rs35270232	0.82[EUR][1000 genomes]
rs35391204	0.86[AFR][1000 genomes];0.98[EUR][1000 genomes]
rs35823585	0.84[EUR][1000 genomes]
rs3794532	0.86[EUR][1000 genomes]
rs3794534	0.82[AMR][1000 genomes]
rs3794535	0.82[AMR][1000 genomes]
rs3794536	0.82[AMR][1000 genomes]
rs3898905	0.98[EUR][1000 genomes]
rs4238383	0.86[AMR][1000 genomes]
rs4365237	0.90[EUR][1000 genomes]
rs4502160	0.86[AMR][1000 genomes]
rs4622456	0.82[AMR][1000 genomes]
rs4774602	0.82[AMR][1000 genomes]
rs4775978	0.82[AMR][1000 genomes]
rs4775982	0.82[AMR][1000 genomes]
rs56148956	0.85[EUR][1000 genomes]
rs56185947	0.81[EUR][1000 genomes]
rs6493518	0.86[AMR][1000 genomes]
rs6493519	0.82[AMR][1000 genomes]
rs6493520	0.84[EUR][1000 genomes]
rs6493521	0.86[EUR][1000 genomes]
rs6493525	0.80[EUR][1000 genomes]
rs689884	0.84[AMR][1000 genomes]
rs7162176	0.92[EUR][1000 genomes]
rs7163176	0.82[AMR][1000 genomes]
rs7164961	0.84[EUR][1000 genomes]
rs7165585	0.82[AMR][1000 genomes]
rs7166110	0.86[AMR][1000 genomes]
rs7166962	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7168659	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7170091	0.83[EUR][1000 genomes]
rs7171459	0.82[AMR][1000 genomes]
rs7171516	0.83[EUR][1000 genomes]
rs7171796	0.82[EUR][1000 genomes]
rs7173375	0.87[AMR][1000 genomes]
rs7174497	0.90[EUR][1000 genomes]
rs7174808	0.90[EUR][1000 genomes]
rs7175017	0.90[EUR][1000 genomes]
rs7178166	0.90[EUR][1000 genomes]
rs7178561	0.81[EUR][1000 genomes]
rs7178776	0.82[EUR][1000 genomes]
rs7179599	0.84[EUR][1000 genomes]
rs7181540	0.92[EUR][1000 genomes]
rs7181553	0.86[AMR][1000 genomes]
rs726158	0.86[EUR][1000 genomes]
rs8024081	0.83[AMR][1000 genomes]
rs8024088	0.82[AMR][1000 genomes]
rs8024585	0.81[EUR][1000 genomes]
rs8024589	0.82[AMR][1000 genomes]
rs8025069	0.90[EUR][1000 genomes]
rs8026521	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs8028258	0.82[AMR][1000 genomes]
rs8028486	0.82[EUR][1000 genomes]
rs8028890	0.82[AMR][1000 genomes]
rs8028922	0.85[EUR][1000 genomes]
rs8035173	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8040975	0.90[EUR][1000 genomes]
rs8040986	0.88[AFR][1000 genomes];0.98[EUR][1000 genomes]
rs8041268	0.82[AMR][1000 genomes]
rs9944235	0.86[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv471243	chr15:51345485-52018096	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	39 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:94 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:51974200-52018800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr15:51974600-52016400	Weak transcription	HUES6 Cell Line	embryonic stem cell
3	chr15:51975600-52017200	Weak transcription	Fetal Brain Male	brain
4	chr15:51983000-52013200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr15:51984800-52018600	Weak transcription	Brain Hippocampus Middle	brain
6	chr15:51990000-52016800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
7	chr15:51991400-52018800	Weak transcription	H1 Cell Line	embryonic stem cell
8	chr15:51992200-52018800	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr15:51993600-52016800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
10	chr15:51995400-52013200	Weak transcription	Brain Substantia Nigra	brain
11	chr15:51999800-52018200	Weak transcription	Fetal Stomach	stomach
12	chr15:52000000-52013800	Weak transcription	Colon Smooth Muscle	Colon
13	chr15:52000800-52024000	Weak transcription	Gastric	stomach
14	chr15:52001000-52018600	Weak transcription	Pancreas	Pancrea
15	chr15:52002400-52013600	Strong transcription	Fetal Brain Female	brain
16	chr15:52002800-52016600	Weak transcription	Pancreatic Islets	Pancreatic Islet
17	chr15:52003400-52013200	Weak transcription	Aorta	Aorta
18	chr15:52004000-52013400	Strong transcription	Brain Germinal Matrix	brain
19	chr15:52004400-52016400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
20	chr15:52004800-52018600	Weak transcription	Spleen	Spleen
21	chr15:52006400-52013800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
22	chr15:52006400-52018400	Weak transcription	Fetal Muscle Leg	muscle
23	chr15:52006800-52013400	Weak transcription	K562	blood
24	chr15:52007000-52023400	Weak transcription	Brain Anterior Caudate	brain
25	chr15:52007400-52013400	Enhancers	Fetal Intestine Large	intestine
26	chr15:52007600-52013400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr15:52007600-52016800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
28	chr15:52007800-52016800	Weak transcription	HUES48 Cell Line	embryonic stem cell
29	chr15:52007800-52018200	Weak transcription	NHDF-Ad	bronchial
30	chr15:52008000-52013400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr15:52008200-52023200	Weak transcription	Rectal Mucosa Donor 29	rectum
32	chr15:52008400-52018400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
33	chr15:52008400-52023400	Weak transcription	Brain Inferior Temporal Lobe	brain
34	chr15:52008800-52016600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
35	chr15:52009000-52013400	Weak transcription	Brain Angular Gyrus	brain
36	chr15:52009000-52016600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
37	chr15:52009600-52014000	Enhancers	Fetal Intestine Small	intestine
38	chr15:52010000-52013400	Enhancers	Duodenum Mucosa	Duodenum
39	chr15:52010000-52013600	Weak transcription	Stomach Mucosa	stomach
40	chr15:52010800-52018400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
41	chr15:52010800-52018400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
42	chr15:52011000-52013400	Weak transcription	Skeletal Muscle Female	skeletal muscle
43	chr15:52011000-52017000	Weak transcription	Adipose Nuclei	Adipose
44	chr15:52011200-52018400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
45	chr15:52011200-52018600	Weak transcription	Sigmoid Colon	Sigmoid Colon
46	chr15:52011400-52013200	Weak transcription	Primary hematopoietic stem cells	blood
47	chr15:52011400-52013200	Weak transcription	A549	lung
48	chr15:52011400-52013200	Weak transcription	GM12878-XiMat	blood
49	chr15:52011400-52014200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
50	chr15:52011400-52016600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood

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