Variant report

Variant	rs2304899
Chromosome Location	chr15:75336729-75336730
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 37 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs12050820	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes]
rs12101482	0.83[AFR][1000 genomes]
rs12148488	0.92[CHB][hapmap];0.84[LWK][hapmap];0.90[YRI][hapmap]
rs12441881	0.80[MEX][hapmap]
rs12593566	1.00[CEU][hapmap];0.89[YRI][hapmap];0.85[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs12899062	0.85[AFR][1000 genomes]
rs12900654	1.00[CEU][hapmap];0.89[YRI][hapmap];0.85[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs12909515	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12912959	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs12917120	0.93[YRI][hapmap]
rs13056	0.92[YRI][hapmap]
rs17422130	1.00[CEU][hapmap];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1867148	0.86[AFR][1000 genomes]
rs1867149	0.83[AFR][1000 genomes]
rs1867151	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2083730	0.88[ASW][hapmap];1.00[CEU][hapmap];0.98[LWK][hapmap];0.86[MKK][hapmap];0.89[YRI][hapmap];0.95[AFR][1000 genomes];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2120019	0.93[YRI][hapmap]
rs2304903	0.83[YRI][hapmap]
rs3812944	1.00[ASW][hapmap];0.92[CHB][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];0.86[MEX][hapmap];0.91[MKK][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes]
rs4627301	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4886651	0.88[ASW][hapmap];1.00[CEU][hapmap];0.98[LWK][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];0.89[YRI][hapmap];0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4886652	0.93[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs59307715	0.85[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs6495139	0.85[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs6495141	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6495143	1.00[CEU][hapmap];0.89[YRI][hapmap];0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6495144	0.86[AFR][1000 genomes]
rs6495149	0.82[AFR][1000 genomes]
rs6495152	0.86[AFR][1000 genomes];0.86[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs7163636	0.92[CHB][hapmap];0.82[CHD][hapmap];0.91[LWK][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes]
rs7167261	0.86[AFR][1000 genomes]
rs8028632	0.93[YRI][hapmap]
rs8030089	0.93[YRI][hapmap]
rs8039755	0.91[CHB][hapmap];1.00[YRI][hapmap];0.85[AFR][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	nsv569993	chr15:75242155-75483752	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	72 gene(s)	inside rSNPs	diseases
2	nsv457205	chr15:75336729-75447773	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv569994	chr15:75336729-75447773	Genic enhancers Weak transcription Enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:75316600-75336800	Weak transcription	Fetal Brain Female	brain
2	chr15:75316800-75338800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr15:75318000-75341400	Weak transcription	Brain Germinal Matrix	brain
4	chr15:75322200-75339000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
5	chr15:75322400-75336800	Weak transcription	Primary T cells from cord blood	blood
6	chr15:75322400-75339200	Weak transcription	Primary T helper cells PMA-I stimulated	--
7	chr15:75322600-75338600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr15:75324600-75339200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
9	chr15:75328600-75338800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr15:75328800-75350400	Weak transcription	HUES64 Cell Line	embryonic stem cell
11	chr15:75329200-75338800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
12	chr15:75329200-75350400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
13	chr15:75329400-75346800	Weak transcription	HUES48 Cell Line	embryonic stem cell
14	chr15:75330600-75340000	Weak transcription	NHEK	skin
15	chr15:75332000-75337000	Weak transcription	Psoas Muscle	Psoas
16	chr15:75333600-75338400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr15:75333600-75341000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
18	chr15:75333800-75337200	Enhancers	Breast Myoepithelial Primary Cells	Breast
19	chr15:75333800-75337400	Enhancers	Stomach Mucosa	stomach
20	chr15:75334000-75344600	Enhancers	Placenta	Placenta
21	chr15:75334200-75336800	Enhancers	Pancreas	Pancrea
22	chr15:75334200-75337000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
23	chr15:75334200-75337000	Enhancers	Fetal Muscle Trunk	muscle
24	chr15:75334200-75340400	Genic enhancers	Fetal Intestine Small	intestine
25	chr15:75334200-75340600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
26	chr15:75334200-75344600	Enhancers	Right Ventricle	heart
27	chr15:75334400-75336800	Enhancers	Fetal Intestine Large	intestine
28	chr15:75334400-75337000	Enhancers	NHDF-Ad	bronchial
29	chr15:75334400-75343200	Enhancers	Fetal Heart	heart
30	chr15:75334600-75336800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
31	chr15:75334600-75337000	Enhancers	Primary B cells from peripheral blood	blood
32	chr15:75334600-75340400	Enhancers	Liver	Liver
33	chr15:75334600-75340800	Enhancers	Fetal Muscle Leg	muscle
34	chr15:75334600-75341000	Enhancers	Lung	lung
35	chr15:75334600-75343200	Enhancers	Right Atrium	heart
36	chr15:75334800-75344600	Enhancers	Left Ventricle	heart
37	chr15:75335000-75336800	Enhancers	NHLF	lung
38	chr15:75335000-75337200	Enhancers	Placenta Amnion	Placenta Amnion
39	chr15:75335000-75337200	Enhancers	HUVEC	blood vessel
40	chr15:75335000-75337600	Enhancers	Sigmoid Colon	Sigmoid Colon
41	chr15:75335000-75340200	Enhancers	Primary T cells fromperipheralblood	blood
42	chr15:75335000-75340400	Enhancers	Fetal Thymus	thymus
43	chr15:75335200-75336800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
44	chr15:75335200-75336800	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
45	chr15:75335200-75337200	Enhancers	HMEC	breast
46	chr15:75335200-75337200	Enhancers	HSMMtube	muscle
47	chr15:75335200-75337400	Genic enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
48	chr15:75335200-75337600	Enhancers	Ovary	ovary
49	chr15:75335200-75338200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
50	chr15:75335200-75340200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin

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