Variant report

Variant	rs900801
Chromosome Location	chr15:74606631-74606632
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:74606352..74608320-chr15:74608433..74611156,2	K562	blood:
2	chr15:74604669..74607171-chr17:59473945..59476764,2	MCF-7	breast:
3	chr15:74284861..74287679-chr15:74606121..74609099,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000140464	Chromatin interaction
ENSG00000267280	Chromatin interaction
ENSG00000067221	Chromatin interaction
ENSG00000140481	Chromatin interaction

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs11631552	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11632698	0.88[CEU][hapmap]
rs11634685	0.88[CEU][hapmap];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11635047	0.84[CEU][hapmap];0.81[EUR][1000 genomes]
rs11638442	0.89[CEU][hapmap];0.81[AMR][1000 genomes]
rs11856695	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12900028	0.81[CEU][hapmap]
rs12905100	0.92[CEU][hapmap];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12906092	0.96[CEU][hapmap];0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12913522	0.82[EUR][1000 genomes]
rs12917295	0.92[CEU][hapmap];0.81[AMR][1000 genomes]
rs1484210	1.00[CEU][hapmap];0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1564783	0.89[CEU][hapmap];0.83[EUR][1000 genomes]
rs1809500	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2279378	0.88[CEU][hapmap];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2899825	0.81[CEU][hapmap];0.88[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs2930291	0.96[CEU][hapmap];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs351184	0.88[CEU][hapmap];0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4887131	0.85[CEU][hapmap];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4887132	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4887134	0.92[CEU][hapmap];0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4887135	0.89[CEU][hapmap];0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs900799	0.82[CEU][hapmap];0.83[EUR][1000 genomes]
rs900800	0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv833054	chr15:74457643-74625283	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
2	nsv428641	chr15:74555113-74724630	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	34 gene(s)	inside rSNPs	diseases
3	nsv482615	chr15:74593625-74757962	Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Strong transcription 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	58 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:49 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:74584200-74607400	Weak transcription	Right Atrium	heart
2	chr15:74596600-74609800	Weak transcription	A549	lung
3	chr15:74601200-74607800	Weak transcription	Fetal Lung	lung
4	chr15:74603000-74610800	Enhancers	Fetal Brain Male	brain
5	chr15:74604200-74607400	Enhancers	Primary hematopoietic stem cells short term culture	blood
6	chr15:74604200-74613400	Enhancers	Placenta	Placenta
7	chr15:74604400-74607000	Weak transcription	NH-A	brain
8	chr15:74604400-74607200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
9	chr15:74604400-74613200	Enhancers	Fetal Thymus	thymus
10	chr15:74604600-74607000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
11	chr15:74604600-74607200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
12	chr15:74604600-74607200	Weak transcription	Cortex derived primary cultured neurospheres	brain
13	chr15:74604600-74607200	Weak transcription	HSMM	muscle
14	chr15:74604600-74608400	Weak transcription	Hela-S3	cervix
15	chr15:74604800-74607200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr15:74604800-74623400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
17	chr15:74605000-74607000	Weak transcription	HUES6 Cell Line	embryonic stem cell
18	chr15:74605200-74607200	Weak transcription	K562	blood
19	chr15:74605200-74607800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr15:74605200-74608000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
21	chr15:74605200-74613400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
22	chr15:74605400-74607200	Weak transcription	NHDF-Ad	bronchial
23	chr15:74605400-74607600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr15:74605400-74611200	Enhancers	Fetal Muscle Trunk	muscle
25	chr15:74605600-74607400	Weak transcription	Fetal Intestine Small	intestine
26	chr15:74605600-74610200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
27	chr15:74606000-74607400	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
28	chr15:74606000-74609000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
29	chr15:74606000-74609400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
30	chr15:74606200-74607600	Enhancers	Primary T cells from cord blood	blood
31	chr15:74606200-74608200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
32	chr15:74606200-74608400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
33	chr15:74606200-74608600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
34	chr15:74606200-74609000	Enhancers	H1 Cell Line	embryonic stem cell
35	chr15:74606200-74612600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
36	chr15:74606200-74613400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
37	chr15:74606400-74608200	Enhancers	Primary T helper cells PMA-I stimulated	--
38	chr15:74606400-74608200	Enhancers	Placenta Amnion	Placenta Amnion
39	chr15:74606400-74608200	Enhancers	Thymus	Thymus
40	chr15:74606400-74608800	Enhancers	Primary T regulatory cells fromperipheralblood	blood
41	chr15:74606400-74613400	Enhancers	Fetal Muscle Leg	muscle
42	chr15:74606600-74606800	Enhancers	Esophagus	oesophagus
43	chr15:74606600-74607600	Enhancers	GM12878-XiMat	blood
44	chr15:74606600-74608000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
45	chr15:74606600-74608200	Enhancers	H9 Cell Line	embryonic stem cell
46	chr15:74606600-74608200	Enhancers	HUES48 Cell Line	embryonic stem cell
47	chr15:74606600-74608800	Enhancers	Primary T helper cells fromperipheralblood	blood
48	chr15:74606600-74611200	Enhancers	Brain Germinal Matrix	brain
49	chr15:74606600-74613400	Enhancers	Fetal Brain Female	brain

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