Variant report

Variant	rs1801376
Chromosome Location	chr15:40477831-40477832
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs1017843	0.80[CHD][hapmap]
rs10518681	0.95[EUR][1000 genomes]
rs10518682	0.94[CEU][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11632939	0.95[CEU][hapmap];0.95[GIH][hapmap];0.89[LWK][hapmap];0.87[MEX][hapmap];0.90[TSI][hapmap];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11634034	0.84[EUR][1000 genomes]
rs11636402	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11637268	0.94[EUR][1000 genomes]
rs11638942	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11854027	0.95[EUR][1000 genomes]
rs11854103	0.95[EUR][1000 genomes]
rs11854965	0.95[EUR][1000 genomes]
rs12438986	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12898627	0.91[EUR][1000 genomes]
rs12899779	0.93[EUR][1000 genomes]
rs12902191	0.95[EUR][1000 genomes]
rs12908093	0.95[EUR][1000 genomes]
rs12910199	0.94[EUR][1000 genomes]
rs12911157	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];0.95[JPT][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12913620	0.94[EUR][1000 genomes]
rs12913741	0.94[EUR][1000 genomes]
rs12913803	0.93[EUR][1000 genomes]
rs12915249	0.95[CEU][hapmap];0.97[GIH][hapmap];0.89[LWK][hapmap];0.87[MEX][hapmap];1.00[TSI][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12916901	0.95[EUR][1000 genomes]
rs1471583	0.95[EUR][1000 genomes]
rs1565863	0.95[EUR][1000 genomes]
rs1565864	0.95[EUR][1000 genomes]
rs1565865	0.95[EUR][1000 genomes]
rs16970409	0.95[EUR][1000 genomes]
rs2277559	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2412480	0.95[EUR][1000 genomes]
rs2412482	0.95[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3214012	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];0.95[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34358001	0.98[EUR][1000 genomes]
rs4244573	0.95[EUR][1000 genomes]
rs4244574	0.95[EUR][1000 genomes]
rs4923857	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4924419	0.93[EUR][1000 genomes]
rs4924420	0.93[EUR][1000 genomes]
rs4924424	0.95[EUR][1000 genomes]
rs4924427	0.91[EUR][1000 genomes]
rs4924430	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4924432	0.98[ASN][1000 genomes]
rs492813	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs500693	1.00[CEU][hapmap];0.95[CHB][hapmap];0.88[CHD][hapmap];0.81[GIH][hapmap];0.89[JPT][hapmap];0.86[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs521896	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.83[GIH][hapmap];0.89[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs597752	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6492932	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6492935	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7162894	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7164047	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7169518	0.85[CEU][hapmap];0.90[CHB][hapmap];0.84[JPT][hapmap];0.89[YRI][hapmap];0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7170412	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7177759	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7178193	0.80[CHD][hapmap]
rs797420	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8037190	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs811746	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530816	chr15:40003136-40586792	Bivalent Enhancer Strong transcription Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:74 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:40453800-40525000	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr15:40454000-40515200	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr15:40454600-40502400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr15:40454800-40524200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr15:40455400-40530400	Weak transcription	Fetal Brain Female	brain
6	chr15:40455600-40518200	Strong transcription	HUES6 Cell Line	embryonic stem cell
7	chr15:40455600-40522200	Strong transcription	HUES48 Cell Line	embryonic stem cell
8	chr15:40455600-40530400	Weak transcription	Brain Germinal Matrix	brain
9	chr15:40456200-40524000	Strong transcription	HUES64 Cell Line	embryonic stem cell
10	chr15:40456200-40524000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
11	chr15:40461600-40486800	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
12	chr15:40462800-40482200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
13	chr15:40463800-40478800	Weak transcription	Fetal Intestine Small	intestine
14	chr15:40463800-40481400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
15	chr15:40463800-40482000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr15:40463800-40482600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
17	chr15:40464000-40485000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr15:40464000-40490200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
19	chr15:40465000-40489600	Weak transcription	Fetal Intestine Large	intestine
20	chr15:40468400-40485800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
21	chr15:40469000-40482600	Weak transcription	NHDF-Ad	bronchial
22	chr15:40471400-40517600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
23	chr15:40471400-40524400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr15:40473200-40517800	Strong transcription	iPS-18 Cell Line	embryonic stem cell
25	chr15:40473600-40478600	Strong transcription	K562	blood
26	chr15:40473600-40479000	Strong transcription	Hela-S3	cervix
27	chr15:40473600-40487400	Strong transcription	H1 Cell Line	embryonic stem cell
28	chr15:40473600-40525200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
29	chr15:40473800-40479200	Strong transcription	HUVEC	blood vessel
30	chr15:40473800-40479400	Strong transcription	HepG2	liver
31	chr15:40474000-40479600	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
32	chr15:40474200-40483000	Strong transcription	H9 Cell Line	embryonic stem cell
33	chr15:40474200-40485000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
34	chr15:40474400-40478000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
35	chr15:40474400-40485400	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
36	chr15:40474600-40478600	Strong transcription	NHEK	skin
37	chr15:40474600-40478800	Strong transcription	ES-I3 Cell Line	embryonic stem cell
38	chr15:40474800-40482800	Strong transcription	Fetal Muscle Trunk	muscle
39	chr15:40475000-40491600	Weak transcription	Rectal Mucosa Donor 29	rectum
40	chr15:40475000-40526400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
41	chr15:40475200-40479400	Strong transcription	Monocytes-CD14+_RO01746	blood
42	chr15:40475400-40478400	Strong transcription	HSMM	muscle
43	chr15:40475400-40480000	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
44	chr15:40475400-40488800	Weak transcription	NH-A	brain
45	chr15:40475400-40522600	Strong transcription	Dnd41	blood
46	chr15:40475600-40490000	Strong transcription	Fetal Thymus	thymus
47	chr15:40475800-40483600	Strong transcription	Cortex derived primary cultured neurospheres	brain
48	chr15:40476000-40478400	Strong transcription	Duodenum Mucosa	Duodenum
49	chr15:40476000-40478400	Strong transcription	HMEC	breast
50	chr15:40476200-40478000	Enhancers	Primary B cells from peripheral blood	blood

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