Variant report

Variant	rs73421623
Chromosome Location	chr15:55650061-55650062
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:55648571..55650756-chr15:55651811..55654369,2	MCF-7	breast:
2	chr15:55648089..55651017-chr15:55698550..55701644,3	MCF-7	breast:
3	chr1:179943932..179944436-chr15:55649661..55650212,2	MCF-7	breast:
4	chr15:55635158..55636900-chr15:55648731..55651543,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000261652	Chromatin interaction
ENSG00000260916	Chromatin interaction

Extended variants
information (count: 88 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:77)

rs_ID	r²[population]
rs10450983	0.82[EUR][1000 genomes]
rs10518810	0.83[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs11732	0.81[EUR][1000 genomes]
rs12101327	0.88[AFR][1000 genomes];0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12148255	0.90[AFR][1000 genomes];0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs16953240	0.80[AMR][1000 genomes]
rs16976307	0.82[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs16976314	0.81[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs2414412	0.80[AMR][1000 genomes]
rs28378485	0.80[AMR][1000 genomes]
rs28413009	0.84[AFR][1000 genomes]
rs28483325	0.80[AMR][1000 genomes]
rs28547352	1.00[ASN][1000 genomes]
rs28636929	0.80[AMR][1000 genomes]
rs28653717	0.85[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs3203152	0.83[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs34482650	0.80[AMR][1000 genomes]
rs56340826	0.80[AMR][1000 genomes]
rs56760921	0.80[AMR][1000 genomes]
rs57412310	0.90[AFR][1000 genomes];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs57489605	0.80[AMR][1000 genomes]
rs57648583	0.80[AMR][1000 genomes]
rs58013690	0.80[AMR][1000 genomes]
rs58053176	0.80[AMR][1000 genomes]
rs58220352	0.80[AMR][1000 genomes]
rs58447274	0.80[AMR][1000 genomes]
rs58550265	0.81[AFR][1000 genomes]
rs58581371	0.80[AMR][1000 genomes]
rs58743089	0.88[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs59228226	0.90[AFR][1000 genomes];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs59562815	0.82[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs59742963	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs60071399	0.80[AMR][1000 genomes]
rs60561373	0.90[AFR][1000 genomes];0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs60925254	0.80[AMR][1000 genomes]
rs61069460	0.80[AMR][1000 genomes]
rs61139258	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6493781	0.82[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs7162724	0.80[AMR][1000 genomes]
rs7164158	0.80[AMR][1000 genomes]
rs7164895	0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7164984	0.80[AMR][1000 genomes]
rs7168455	0.80[AMR][1000 genomes]
rs7168869	1.00[EUR][1000 genomes]
rs7169460	0.80[AMR][1000 genomes]
rs7170157	0.80[AMR][1000 genomes]
rs7170970	0.80[AMR][1000 genomes]
rs7171766	0.89[EUR][1000 genomes]
rs7173562	0.80[AMR][1000 genomes]
rs7176013	0.80[AMR][1000 genomes]
rs7177113	0.82[EUR][1000 genomes]
rs7177362	0.96[EUR][1000 genomes]
rs7177888	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs7183937	0.89[EUR][1000 genomes]
rs73406912	0.80[AMR][1000 genomes]
rs73406921	0.80[AMR][1000 genomes]
rs73406928	0.80[AMR][1000 genomes]
rs73406986	0.80[AMR][1000 genomes]
rs73408805	0.80[AMR][1000 genomes]
rs73408809	0.80[AMR][1000 genomes]
rs73408825	0.83[AMR][1000 genomes]
rs73421633	0.93[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs73421665	0.80[AMR][1000 genomes]
rs74015572	0.84[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs8023354	0.80[AMR][1000 genomes]
rs8028482	0.82[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs8029258	0.80[AMR][1000 genomes]
rs8031507	0.95[AFR][1000 genomes];0.80[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs8031625	0.87[AFR][1000 genomes]
rs8034029	0.80[AMR][1000 genomes]
rs8039224	0.91[AFR][1000 genomes];0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs8040840	0.80[AMR][1000 genomes]
rs8041044	0.83[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs8041349	0.80[AMR][1000 genomes]
rs8041382	0.80[AMR][1000 genomes]
rs8041885	0.81[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs8043415	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv917323	chr15:55290499-56041334	Genic enhancers Active TSS ZNF genes & repeats Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
2	nsv1043789	chr15:55400872-56092454	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
3	nsv1051046	chr15:55529291-55821973	Weak transcription Active TSS Flanking Active TSS Enhancers Genic enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
4	nsv1036173	chr15:55547689-55812194	Flanking Active TSS Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
5	nsv542391	chr15:55547689-55812194	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
6	nsv569523	chr15:55555602-55836704	Weak transcription Flanking Active TSS Active TSS Enhancers Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
7	nsv1040917	chr15:55562940-55943942	Flanking Active TSS Weak transcription Strong transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Enhancers Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
8	nsv531054	chr15:55571230-55914205	Strong transcription Active TSS Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
9	nsv904243	chr15:55627528-55734158	Flanking Active TSS Weak transcription Enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
10	nsv948522	chr15:55639867-56032099	Weak transcription Strong transcription Flanking Active TSS Genic enhancers Enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
11	nsv520799	chr15:55645661-55760522	Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Active TSS Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA miRNA target site	23 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:105 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:55611800-55699400	Weak transcription	Colonic Mucosa	Colon
2	chr15:55612000-55665000	Weak transcription	Skeletal Muscle Male	skeletal muscle
3	chr15:55612000-55671000	Weak transcription	Right Ventricle	heart
4	chr15:55612000-55671000	Weak transcription	Small Intestine	intestine
5	chr15:55612600-55650200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr15:55612600-55663600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr15:55612600-55675600	Weak transcription	Aorta	Aorta
8	chr15:55612800-55677600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr15:55620400-55658000	Strong transcription	Monocytes-CD14+_RO01746	blood
10	chr15:55623000-55652600	Weak transcription	Psoas Muscle	Psoas
11	chr15:55623800-55660200	Weak transcription	Brain Inferior Temporal Lobe	brain
12	chr15:55630000-55695000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
13	chr15:55630400-55654600	Weak transcription	Fetal Muscle Trunk	muscle
14	chr15:55630400-55675600	Weak transcription	Rectal Smooth Muscle	rectum
15	chr15:55630600-55655800	Weak transcription	Brain Angular Gyrus	brain
16	chr15:55630600-55660200	Weak transcription	Brain Cingulate Gyrus	brain
17	chr15:55630600-55663200	Weak transcription	Fetal Lung	lung
18	chr15:55630600-55667800	Weak transcription	Colon Smooth Muscle	Colon
19	chr15:55630600-55668400	Weak transcription	Brain Substantia Nigra	brain
20	chr15:55630800-55652400	Weak transcription	Fetal Muscle Leg	muscle
21	chr15:55630800-55683600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
22	chr15:55631000-55667800	Weak transcription	Brain Hippocampus Middle	brain
23	chr15:55631200-55663200	Weak transcription	Pancreas	Pancrea
24	chr15:55631200-55674000	Weak transcription	Placenta	Placenta
25	chr15:55633600-55667200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
26	chr15:55635800-55675200	Weak transcription	Fetal Brain Male	brain
27	chr15:55636600-55657000	Weak transcription	Fetal Brain Female	brain
28	chr15:55636600-55678200	Weak transcription	Fetal Thymus	thymus
29	chr15:55636800-55651000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr15:55636800-55652000	Weak transcription	Left Ventricle	heart
31	chr15:55636800-55666200	Weak transcription	Brain Germinal Matrix	brain
32	chr15:55637000-55660400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
33	chr15:55637000-55663000	Weak transcription	K562	blood
34	chr15:55637000-55663400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
35	chr15:55637000-55671400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
36	chr15:55637000-55699600	Weak transcription	Cortex derived primary cultured neurospheres	brain
37	chr15:55637400-55680200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
38	chr15:55638000-55658200	Strong transcription	Primary neutrophils fromperipheralblood	blood
39	chr15:55639600-55652600	Weak transcription	Ovary	ovary
40	chr15:55641000-55651000	Weak transcription	Stomach Smooth Muscle	stomach
41	chr15:55641000-55652600	Weak transcription	Sigmoid Colon	Sigmoid Colon
42	chr15:55641000-55654800	Weak transcription	HSMMtube	muscle
43	chr15:55641000-55655200	Weak transcription	Lung	lung
44	chr15:55641000-55667800	Weak transcription	Spleen	Spleen
45	chr15:55641000-55668000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
46	chr15:55641000-55671600	Weak transcription	Thymus	Thymus
47	chr15:55641200-55658200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
48	chr15:55641600-55660200	Weak transcription	Gastric	stomach
49	chr15:55643000-55664000	Weak transcription	GM12878-XiMat	blood
50	chr15:55643200-55656400	Weak transcription	Hela-S3	cervix

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