Variant report

Variant	rs34098740
Chromosome Location	chr15:52055303-52055304
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:52049654..52051374-chr15:52054509..52056705,2	MCF-7	breast:
2	chr15:52054450..52058295-chr15:52061213..52063877,3	MCF-7	breast:
3	chr15:52047517..52051526-chr15:52055116..52057120,3	K562	blood:
4	chr15:52044048..52045789-chr15:52054903..52057784,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000259377	Chromatin interaction

Extended variants
information (count: 59 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs10444824	0.86[ASN][1000 genomes]
rs10444825	0.86[ASN][1000 genomes]
rs11070866	0.86[ASN][1000 genomes]
rs11070867	0.86[ASN][1000 genomes]
rs11070868	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11070869	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11630579	0.86[ASN][1000 genomes]
rs11630943	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11631858	0.86[ASN][1000 genomes]
rs11637876	0.85[ASN][1000 genomes]
rs12050524	0.86[ASN][1000 genomes]
rs12903500	0.86[ASN][1000 genomes]
rs12904413	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12904900	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12905283	0.80[EUR][1000 genomes]
rs12913583	0.86[ASN][1000 genomes]
rs17526463	0.86[ASN][1000 genomes]
rs17610862	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17611193	0.85[ASN][1000 genomes]
rs1840708	0.80[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1863430	0.86[ASN][1000 genomes]
rs2010026	0.83[EUR][1000 genomes]
rs2034856	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2554314	0.86[ASN][1000 genomes]
rs28699115	0.85[ASN][1000 genomes]
rs34504520	0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs35270232	0.85[ASN][1000 genomes]
rs35391204	0.84[ASN][1000 genomes]
rs35823585	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3794532	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3898905	0.86[ASN][1000 genomes]
rs4365237	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs56148956	0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs56185947	0.86[ASN][1000 genomes]
rs6493520	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6493521	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7162176	0.86[ASN][1000 genomes]
rs7164961	0.86[ASN][1000 genomes]
rs7170091	0.84[ASN][1000 genomes]
rs7171516	0.84[ASN][1000 genomes]
rs7171796	0.84[ASN][1000 genomes]
rs7174497	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7174808	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7175017	0.80[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7178166	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7178776	0.86[ASN][1000 genomes]
rs7178940	0.81[ASN][1000 genomes]
rs7179599	0.86[ASN][1000 genomes]
rs7181540	0.86[ASN][1000 genomes]
rs726158	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs8025069	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs8026521	0.81[EUR][1000 genomes]
rs8028922	0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs8040975	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs8040986	0.84[ASN][1000 genomes]
rs9944235	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][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	nsv569409	chr15:52028914-52268144	Strong transcription Weak transcription Flanking Active TSS Enhancers Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
2	esv3411789	chr15:52052789-52087519	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	n/a
3	esv1921562	chr15:52055304-52055305	Weak transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:61 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:52044600-52060000	Weak transcription	Esophagus	oesophagus
2	chr15:52044600-52060200	Weak transcription	Aorta	Aorta
3	chr15:52044800-52060000	Weak transcription	Spleen	Spleen
4	chr15:52045000-52060200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr15:52046800-52060000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
6	chr15:52048000-52058000	Weak transcription	Primary T cells from cord blood	blood
7	chr15:52048200-52060000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
8	chr15:52048200-52060200	Weak transcription	Thymus	Thymus
9	chr15:52049200-52060000	Weak transcription	Dnd41	blood
10	chr15:52049400-52059800	Weak transcription	Primary B cells from cord blood	blood
11	chr15:52049800-52059800	Weak transcription	Primary neutrophils fromperipheralblood	blood
12	chr15:52051200-52060000	Weak transcription	Fetal Muscle Trunk	muscle
13	chr15:52051200-52060000	Weak transcription	Lung	lung
14	chr15:52051200-52077600	Weak transcription	Psoas Muscle	Psoas
15	chr15:52051400-52060000	Weak transcription	Fetal Brain Female	brain
16	chr15:52051400-52060200	Weak transcription	Adipose Nuclei	Adipose
17	chr15:52051400-52060400	Weak transcription	Stomach Smooth Muscle	stomach
18	chr15:52051400-52061200	Weak transcription	Skeletal Muscle Female	skeletal muscle
19	chr15:52051400-52068400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
20	chr15:52051400-52068400	Weak transcription	Stomach Mucosa	stomach
21	chr15:52052200-52056800	Weak transcription	Cortex derived primary cultured neurospheres	brain
22	chr15:52052200-52060000	Weak transcription	Left Ventricle	heart
23	chr15:52052200-52060000	Weak transcription	Ovary	ovary
24	chr15:52052200-52060200	Weak transcription	Right Ventricle	heart
25	chr15:52052200-52060800	Weak transcription	Colon Smooth Muscle	Colon
26	chr15:52052200-52061200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
27	chr15:52052200-52064200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr15:52052200-52068200	Weak transcription	Fetal Intestine Small	intestine
29	chr15:52052200-52068600	Weak transcription	HMEC	breast
30	chr15:52052200-52074600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
31	chr15:52052200-52076000	Weak transcription	Fetal Brain Male	brain
32	chr15:52052200-52101800	Weak transcription	Colonic Mucosa	Colon
33	chr15:52052400-52060000	Weak transcription	Fetal Muscle Leg	muscle
34	chr15:52052400-52060200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
35	chr15:52052400-52060200	Weak transcription	Fetal Lung	lung
36	chr15:52052400-52060600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
37	chr15:52052400-52061000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
38	chr15:52052400-52067000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
39	chr15:52052400-52068200	Weak transcription	Fetal Intestine Large	intestine
40	chr15:52052400-52073200	Weak transcription	NHDF-Ad	bronchial
41	chr15:52052400-52078400	Weak transcription	Rectal Smooth Muscle	rectum
42	chr15:52052600-52056600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
43	chr15:52052600-52060000	Weak transcription	NHLF	lung
44	chr15:52052600-52060400	Weak transcription	Pancreatic Islets	Pancreatic Islet
45	chr15:52052600-52065200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
46	chr15:52052600-52106600	Weak transcription	HSMM	muscle
47	chr15:52053000-52060000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
48	chr15:52053200-52056000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
49	chr15:52053400-52056400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
50	chr15:52053400-52056400	Weak transcription	Brain Anterior Caudate	brain

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