Variant report

Variant	rs35621205
Chromosome Location	chr15:41108739-41108740
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:41094059..41097035-chr15:41107572..41109488,2	MCF-7	breast:
2	chr15:41107457..41109620-chr15:41136120..41137941,3	MCF-7	breast:
3	chr15:41097893..41103310-chr15:41103796..41109268,7	MCF-7	breast:
4	chr15:41107252..41108944-chr15:41109410..41111442,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000166140	Chromatin interaction
ENSG00000104129	Chromatin interaction
ENSG00000261183	Chromatin interaction
ENSG00000166145	Chromatin interaction

Extended variants
information (count: 39 )
Associated
traits (count: 10 )

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

rs_ID	r²[population]
rs10152371	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11070294	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11070295	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11070296	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11070297	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11856866	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11858010	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12148058	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12899910	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12905621	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12909824	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12916485	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12916535	0.85[EUR][1000 genomes]
rs17657877	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17657986	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34143869	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs34817886	0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs34948298	0.90[EUR][1000 genomes]
rs35458726	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs35853942	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3736286	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3743033	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3743034	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4402538	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56886112	0.85[EUR][1000 genomes]
rs57818172	0.85[EUR][1000 genomes]
rs57825040	0.85[EUR][1000 genomes]
rs57943888	0.85[EUR][1000 genomes]
rs57994257	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs62018585	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6492967	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs745032	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs8036842	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs8037830	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv904101	chr15:40979651-41275014	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	98 gene(s)	inside rSNPs	diseases
2	esv1819092	chr15:41017682-41255750	Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Flanking Active TSS Weak transcription Strong transcription Active TSS Enhancers Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	83 gene(s)	inside rSNPs	diseases
3	nsv904102	chr15:41046883-41201699	Strong transcription Flanking Active TSS Enhancers Weak transcription Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
4	nsv1054764	chr15:41068625-41196410	Active TSS Strong transcription Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
5	nsv569228	chr15:41106485-41194151	Enhancers Flanking Active TSS Genic enhancers Active TSS Strong transcription Weak transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases

mRNA abundance (count:10)

SNP	Gene	Cis/trans	Tissue	Source
rs35621205	ZFYVE19	cis	Thyroid	GTEx
rs35621205	ZFYVE19	cis	Esophagus Muscularis	GTEx
rs35621205	ZFYVE19	Cis_1M	lymphoblastoid	RTeQTL
rs35621205	C15orf57	cis	Adipose Subcutaneous	GTEx
rs35621205	ZFYVE19	cis	Nerve Tibial	GTEx
rs35621205	ZFYVE19	cis	Artery Tibial	GTEx
rs35621205	C15orf57	cis	Artery Tibial	GTEx
rs35621205	RP11-111A22.1	cis	Artery Tibial	GTEx
rs35621205	CCDC32	Cis_1M	lymphoblastoid	RTeQTL
rs35621205	ZFYVE19	cis	Artery Aorta	GTEx

Chromatin state (count:78 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:41100600-41108800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr15:41100600-41108800	Weak transcription	HUES64 Cell Line	embryonic stem cell
3	chr15:41100800-41109200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
4	chr15:41100800-41120200	Weak transcription	Small Intestine	intestine
5	chr15:41101200-41110400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
6	chr15:41101400-41109200	Strong transcription	Sigmoid Colon	Sigmoid Colon
7	chr15:41101400-41109600	Strong transcription	Fetal Intestine Small	intestine
8	chr15:41101400-41115800	Weak transcription	A549	lung
9	chr15:41102800-41109000	Strong transcription	Duodenum Mucosa	Duodenum
10	chr15:41103400-41110400	Weak transcription	H9 Cell Line	embryonic stem cell
11	chr15:41103600-41109000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
12	chr15:41103800-41109000	Weak transcription	GM12878-XiMat	blood
13	chr15:41103800-41115600	Weak transcription	HepG2	liver
14	chr15:41104200-41115800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr15:41104600-41109000	Weak transcription	Muscle Satellite Cultured Cells	--
16	chr15:41104600-41115800	Weak transcription	HMEC	breast
17	chr15:41106000-41117600	Weak transcription	Hela-S3	cervix
18	chr15:41106600-41108800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
19	chr15:41106600-41109000	Weak transcription	NHLF	lung
20	chr15:41106600-41109800	Weak transcription	Primary T helper cells fromperipheralblood	blood
21	chr15:41107000-41109200	Weak transcription	Primary hematopoietic stem cells	blood
22	chr15:41107000-41109400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
23	chr15:41107200-41109000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
24	chr15:41107200-41109400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
25	chr15:41107200-41109400	Weak transcription	Osteobl	bone
26	chr15:41107200-41110400	Weak transcription	Lung	lung
27	chr15:41107200-41135200	Weak transcription	Placenta Amnion	Placenta Amnion
28	chr15:41107400-41109000	Weak transcription	HUES48 Cell Line	embryonic stem cell
29	chr15:41107400-41109000	Weak transcription	Colon Smooth Muscle	Colon
30	chr15:41107400-41109000	Weak transcription	Ovary	ovary
31	chr15:41107400-41109000	Weak transcription	Dnd41	blood
32	chr15:41107400-41109200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
33	chr15:41107400-41109200	Weak transcription	Primary monocytes fromperipheralblood	blood
34	chr15:41107400-41109600	Weak transcription	HUES6 Cell Line	embryonic stem cell
35	chr15:41107400-41109800	Weak transcription	Skeletal Muscle Male	skeletal muscle
36	chr15:41107400-41110000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
37	chr15:41107400-41110200	Weak transcription	Fetal Brain Female	brain
38	chr15:41107400-41110600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
39	chr15:41107400-41115400	Weak transcription	Fetal Intestine Large	intestine
40	chr15:41107400-41118000	Weak transcription	Gastric	stomach
41	chr15:41107600-41109200	Weak transcription	Liver	Liver
42	chr15:41107600-41109400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
43	chr15:41107600-41109800	Weak transcription	Duodenum Smooth Muscle	Duodenum
44	chr15:41107600-41109800	Weak transcription	Stomach Mucosa	stomach
45	chr15:41107600-41110200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
46	chr15:41107600-41117600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
47	chr15:41107600-41117600	Weak transcription	Rectal Smooth Muscle	rectum
48	chr15:41107600-41120400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
49	chr15:41107600-41135200	Weak transcription	Esophagus	oesophagus
50	chr15:41107800-41109400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood

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