Variant report

Variant	rs73407386
Chromosome Location	chr15:52073802-52073803
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:52072694..52074758-chr15:52121019..52123367,2	MCF-7	breast:
2	chr15:52071204..52073372-chr15:52073391..52075990,2	MCF-7	breast:
3	chr15:52072134..52075031-chr15:52213597..52215274,2	MCF-7	breast:
4	chr15:52072025..52074741-chr15:52120265..52123225,4	MCF-7	breast:
5	chr15:52073675..52076293-chr15:52262420..52265302,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000138594	Chromatin interaction
ENSG00000166477	Chromatin interaction
ENSG00000128872	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10519323	1.00[ASN][1000 genomes]
rs12442283	0.81[ASN][1000 genomes]
rs16964523	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17649047	0.89[ASN][1000 genomes]
rs17649178	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17705530	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17705649	0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17705685	0.92[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs2414118	0.81[ASN][1000 genomes]
rs2570234	1.00[EUR][1000 genomes]
rs2623253	1.00[EUR][1000 genomes]
rs2899483	0.82[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs36097346	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3794533	0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3794537	0.84[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs4774601	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4775971	0.82[AMR][1000 genomes]
rs4775979	0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7166322	0.92[ASN][1000 genomes]
rs7170429	0.92[ASN][1000 genomes]
rs7170700	0.81[ASN][1000 genomes]
rs7173661	0.81[ASN][1000 genomes]
rs7179139	0.94[ASN][1000 genomes]
rs72730966	0.89[ASN][1000 genomes]
rs73407396	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73409011	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs8024441	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs8026507	0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs8027426	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 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

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:52051200-52077600	Weak transcription	Psoas Muscle	Psoas
2	chr15:52052200-52074600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
3	chr15:52052200-52076000	Weak transcription	Fetal Brain Male	brain
4	chr15:52052200-52101800	Weak transcription	Colonic Mucosa	Colon
5	chr15:52052400-52078400	Weak transcription	Rectal Smooth Muscle	rectum
6	chr15:52052600-52106600	Weak transcription	HSMM	muscle
7	chr15:52053400-52090600	Weak transcription	Pancreas	Pancrea
8	chr15:52060200-52103400	Weak transcription	Rectal Mucosa Donor 31	rectum
9	chr15:52060400-52079200	Weak transcription	HUES6 Cell Line	embryonic stem cell
10	chr15:52060400-52085400	Weak transcription	Fetal Lung	lung
11	chr15:52060600-52087400	Weak transcription	Gastric	stomach
12	chr15:52060600-52088400	Weak transcription	Duodenum Mucosa	Duodenum
13	chr15:52060600-52091000	Weak transcription	Right Ventricle	heart
14	chr15:52060800-52074600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
15	chr15:52060800-52101200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
16	chr15:52060800-52102600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
17	chr15:52060800-52105400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
18	chr15:52061000-52074400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
19	chr15:52061600-52085400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr15:52061600-52112000	Weak transcription	NHLF	lung
21	chr15:52061800-52076200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
22	chr15:52061800-52077200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
23	chr15:52061800-52098600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
24	chr15:52063000-52074600	Weak transcription	Skeletal Muscle Male	skeletal muscle
25	chr15:52064400-52090400	Weak transcription	Left Ventricle	heart
26	chr15:52064600-52078400	Weak transcription	Fetal Muscle Leg	muscle
27	chr15:52065600-52090600	Weak transcription	Spleen	Spleen
28	chr15:52065800-52091000	Weak transcription	Esophagus	oesophagus
29	chr15:52067200-52090600	Weak transcription	Rectal Mucosa Donor 29	rectum
30	chr15:52067400-52074600	Weak transcription	Dnd41	blood
31	chr15:52067400-52078400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
32	chr15:52067400-52079800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
33	chr15:52067600-52090600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
34	chr15:52067800-52074200	Weak transcription	Primary T helper cells fromperipheralblood	blood
35	chr15:52067800-52074600	Weak transcription	Fetal Muscle Trunk	muscle
36	chr15:52067800-52089000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
37	chr15:52068400-52078200	Weak transcription	Thymus	Thymus
38	chr15:52068400-52079200	Weak transcription	Fetal Stomach	stomach
39	chr15:52069200-52074600	Weak transcription	Adipose Nuclei	Adipose
40	chr15:52069200-52074600	Weak transcription	Skeletal Muscle Female	skeletal muscle
41	chr15:52069200-52078400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
42	chr15:52069200-52091000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
43	chr15:52069400-52074200	Weak transcription	Brain Cingulate Gyrus	brain
44	chr15:52069400-52074800	Weak transcription	Colon Smooth Muscle	Colon
45	chr15:52069400-52074800	Weak transcription	Fetal Intestine Small	intestine
46	chr15:52069400-52075800	Weak transcription	Fetal Intestine Large	intestine
47	chr15:52069400-52076800	Weak transcription	Liver	Liver
48	chr15:52069400-52078800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
49	chr15:52069400-52085200	Weak transcription	Pancreatic Islets	Pancreatic Islet
50	chr15:52070000-52074800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain

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