Variant report

Variant	rs74016405
Chromosome Location	chr15:51860479-51860480
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:51856573..51860560-chr15:51913023..51916306,6	MCF-7	breast:
2	chr15:51846158..51849118-chr15:51859655..51862008,2	MCF-7	breast:
3	chr15:51859502..51861947-chr15:52073735..52076540,2	MCF-7	breast:
4	chr15:51859933..51862256-chr15:51866857..51869173,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000128872	Chromatin interaction
ENSG00000104093	Chromatin interaction

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs12101851	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56246647	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56392335	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57155911	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58735105	1.00[AMR][1000 genomes]
rs59861752	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61514213	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61628696	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7174890	1.00[AMR][1000 genomes]
rs74013204	1.00[AMR][1000 genomes]
rs74013206	1.00[AMR][1000 genomes]
rs74013208	1.00[AMR][1000 genomes]
rs74013273	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74013274	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74013281	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74013294	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74013295	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74013296	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74013297	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74013300	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74013301	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74013497	1.00[AMR][1000 genomes]
rs74013501	1.00[AMR][1000 genomes]
rs74013502	1.00[AMR][1000 genomes]
rs74015704	1.00[AMR][1000 genomes]
rs74015707	1.00[AMR][1000 genomes]
rs74015710	1.00[AMR][1000 genomes]
rs74016403	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74016406	1.00[AMR][1000 genomes]
rs74016407	0.87[AFR][1000 genomes]
rs74016411	1.00[AMR][1000 genomes]
rs74016412	1.00[AMR][1000 genomes]
rs74016423	1.00[AMR][1000 genomes]
rs8024353	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 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
2	nsv904217	chr15:51695653-51881980	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
3	nsv904218	chr15:51743186-51873407	Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv569405	chr15:51791559-51890282	Strong transcription Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	nsv457138	chr15:51838719-51890282	Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Genic enhancers Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
6	nsv569406	chr15:51838719-51890282	Enhancers Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
7	nsv904219	chr15:51851999-51977159	Flanking Active TSS Weak transcription Bivalent Enhancer Enhancers Bivalent/Poised TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	18 gene(s)	inside rSNPs	n/a
8	nsv457139	chr15:51854718-51977159	Bivalent Enhancer Flanking Active TSS Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region	18 gene(s)	inside rSNPs	n/a
9	nsv569407	chr15:51854718-51977159	Flanking Active TSS Enhancers Weak transcription Strong transcription Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	18 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:44 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:51781400-51863000	Weak transcription	HSMM	muscle
2	chr15:51794600-51861000	Weak transcription	Gastric	stomach
3	chr15:51816000-51861000	Weak transcription	Pancreas	Pancrea
4	chr15:51817800-51862200	Weak transcription	Fetal Brain Male	brain
5	chr15:51818200-51861600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr15:51818400-51861200	Weak transcription	Fetal Stomach	stomach
7	chr15:51819600-51861400	Weak transcription	Fetal Muscle Trunk	muscle
8	chr15:51819800-51863000	Weak transcription	Right Ventricle	heart
9	chr15:51824600-51860600	Weak transcription	Brain Anterior Caudate	brain
10	chr15:51824600-51861000	Weak transcription	Left Ventricle	heart
11	chr15:51824800-51863200	Weak transcription	Primary hematopoietic stem cells	blood
12	chr15:51827000-51861600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
13	chr15:51828600-51861200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr15:51828800-51868000	Weak transcription	Adipose Nuclei	Adipose
15	chr15:51828800-51868200	Weak transcription	Fetal Intestine Large	intestine
16	chr15:51829000-51861000	Weak transcription	Fetal Lung	lung
17	chr15:51829000-51868800	Weak transcription	A549	lung
18	chr15:51829200-51861000	Weak transcription	Placenta	Placenta
19	chr15:51829400-51860600	Weak transcription	Fetal Brain Female	brain
20	chr15:51829400-51863200	Weak transcription	Dnd41	blood
21	chr15:51830000-51861000	Weak transcription	K562	blood
22	chr15:51831400-51868800	Weak transcription	Rectal Mucosa Donor 31	rectum
23	chr15:51836400-51861400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
24	chr15:51836800-51869000	Weak transcription	Rectal Mucosa Donor 29	rectum
25	chr15:51839400-51868600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr15:51846600-51861000	Weak transcription	HepG2	liver
27	chr15:51849600-51861000	Weak transcription	Spleen	Spleen
28	chr15:51850600-51861000	Weak transcription	Duodenum Mucosa	Duodenum
29	chr15:51850800-51867400	Weak transcription	Cortex derived primary cultured neurospheres	brain
30	chr15:51851400-51868200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
31	chr15:51851800-51865600	Weak transcription	Primary neutrophils fromperipheralblood	blood
32	chr15:51852600-51861000	Strong transcription	Monocytes-CD14+_RO01746	blood
33	chr15:51853800-51861000	Weak transcription	Lung	lung
34	chr15:51853800-51861200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
35	chr15:51853800-51861600	Weak transcription	Sigmoid Colon	Sigmoid Colon
36	chr15:51853800-51863200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
37	chr15:51854000-51868800	Weak transcription	Ovary	ovary
38	chr15:51855400-51868600	Weak transcription	Duodenum Smooth Muscle	Duodenum
39	chr15:51855600-51861000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
40	chr15:51855600-51861200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
41	chr15:51858600-51861000	Strong transcription	Primary monocytes fromperipheralblood	blood
42	chr15:51859000-51861400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
43	chr15:51859800-51862000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
44	chr15:51860400-51861000	Weak transcription	Fetal Intestine Small	intestine

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