Variant report

Variant	rs1001507
Chromosome Location	chr15:74236953-74236954
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr15:74217872-74240199	U87	brain:	n/a	n/a
2	POLR2A	chr15:74215819-74242527	U87	brain:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr15:74235429..74237586-chr15:74282508..74284400,2	MCF-7	breast:
2	chr15:74217306..74220336-chr15:74236509..74239961,4	MCF-7	breast:
3	chr15:74231490..74233026-chr15:74235513..74237845,2	MCF-7	breast:
4	chr15:74234337..74237104-chr15:74240874..74243639,2	MCF-7	breast:

Variant related genes	Relation type
LOXL1	TF binding region
ENSG00000067221	Chromatin interaction
ENSG00000129038	Chromatin interaction
ENSG00000261801	Chromatin interaction

Extended variants
information (count: 8 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs11855863	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55899956	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6495086	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74026313	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1043335	chr15:74078689-74241186	Weak transcription Flanking Active TSS Strong transcription Enhancers Bivalent Enhancer Genic enhancers Active TSS 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	17 gene(s)	inside rSNPs	diseases
2	esv2758387	chr15:74215114-74464916	Enhancers Flanking Active TSS Bivalent/Poised TSS Weak transcription Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
3	esv2760040	chr15:74215114-74464916	Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
4	nsv428308	chr15:74215114-74464916	Transcr. at gene 5' and 3' Enhancers Weak transcription Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:83 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:74222600-74243200	Weak transcription	Duodenum Smooth Muscle	Duodenum
2	chr15:74228400-74239600	Weak transcription	Pancreas	Pancrea
3	chr15:74228800-74243200	Weak transcription	Brain Inferior Temporal Lobe	brain
4	chr15:74229000-74243000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr15:74229200-74241000	Weak transcription	Pancreatic Islets	Pancreatic Islet
6	chr15:74229600-74237000	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr15:74230000-74239200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr15:74231400-74238000	Enhancers	Placenta	Placenta
9	chr15:74231800-74242800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr15:74232600-74239400	Weak transcription	Brain Anterior Caudate	brain
11	chr15:74232600-74243000	Weak transcription	Brain Hippocampus Middle	brain
12	chr15:74232800-74244000	Weak transcription	H9 Cell Line	embryonic stem cell
13	chr15:74233000-74237200	Weak transcription	Fetal Kidney	kidney
14	chr15:74233000-74237600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr15:74233400-74240200	Weak transcription	Colon Smooth Muscle	Colon
16	chr15:74233400-74243000	Weak transcription	Duodenum Mucosa	Duodenum
17	chr15:74233600-74243200	Weak transcription	Colonic Mucosa	Colon
18	chr15:74233800-74237000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr15:74233800-74243800	Weak transcription	Stomach Mucosa	stomach
20	chr15:74234000-74237800	Genic enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr15:74234000-74238000	Genic enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
22	chr15:74234200-74240000	Enhancers	Fetal Thymus	thymus
23	chr15:74234600-74237400	Weak transcription	Fetal Brain Female	brain
24	chr15:74234600-74237600	Genic enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr15:74234600-74243200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
26	chr15:74234800-74237000	Genic enhancers	NHLF	lung
27	chr15:74234800-74237400	Genic enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
28	chr15:74234800-74249400	Weak transcription	Primary T cells from cord blood	blood
29	chr15:74235000-74237800	Genic enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
30	chr15:74235000-74238600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
31	chr15:74235200-74237000	Weak transcription	Skeletal Muscle Male	skeletal muscle
32	chr15:74235200-74237200	Weak transcription	Fetal Heart	heart
33	chr15:74235200-74239200	Weak transcription	Right Ventricle	heart
34	chr15:74235200-74239800	Weak transcription	Skeletal Muscle Female	skeletal muscle
35	chr15:74235200-74243400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
36	chr15:74235400-74237000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
37	chr15:74235400-74238400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
38	chr15:74235400-74243400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
39	chr15:74235600-74238600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
40	chr15:74235600-74238800	Weak transcription	Primary T cells fromperipheralblood	blood
41	chr15:74235600-74238800	Weak transcription	Aorta	Aorta
42	chr15:74235800-74238000	Strong transcription	HSMM	muscle
43	chr15:74236000-74237200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
44	chr15:74236200-74237000	Strong transcription	Fetal Lung	lung
45	chr15:74236200-74238000	Genic enhancers	Fetal Stomach	stomach
46	chr15:74236400-74237000	Genic enhancers	Muscle Satellite Cultured Cells	--
47	chr15:74236400-74237000	Enhancers	Fetal Intestine Large	intestine
48	chr15:74236400-74237000	Genic enhancers	NH-A	brain
49	chr15:74236400-74237200	Enhancers	HMEC	breast
50	chr15:74236400-74237400	Enhancers	Cortex derived primary cultured neurospheres	brain

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