Variant report

Variant	rs16977276
Chromosome Location	chr15:57470400-57470401
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs1045665	1.00[MEX][hapmap];0.95[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10518898	0.95[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10518904	1.00[MEX][hapmap];0.95[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12437713	1.00[ASW][hapmap];1.00[YRI][hapmap]
rs12900589	1.00[YRI][hapmap]
rs12900874	0.94[YRI][hapmap]
rs16953323	1.00[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977181	0.94[YRI][hapmap];1.00[EUR][1000 genomes]
rs16977199	0.95[YRI][hapmap];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977201	0.95[YRI][hapmap]
rs16977217	0.95[YRI][hapmap];0.80[AMR][1000 genomes]
rs16977218	0.95[YRI][hapmap];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977232	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977235	1.00[YRI][hapmap];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977242	1.00[YRI][hapmap];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977244	0.82[YRI][hapmap];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977245	0.94[YRI][hapmap];1.00[EUR][1000 genomes]
rs16977253	1.00[YRI][hapmap];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977272	0.87[ASW][hapmap];0.86[LWK][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];1.00[YRI][hapmap];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977280	1.00[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977284	1.00[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977297	0.95[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977308	1.00[MEX][hapmap];0.95[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977312	0.95[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977315	0.94[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977329	1.00[EUR][1000 genomes]
rs16977330	0.95[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977333	0.95[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977341	0.94[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977352	0.94[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977353	1.00[MEX][hapmap];0.95[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977354	0.85[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977372	0.81[YRI][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17415738	1.00[ASW][hapmap];1.00[MEX][hapmap];1.00[YRI][hapmap];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1867639	1.00[EUR][1000 genomes]
rs2169466	1.00[YRI][hapmap]
rs2593220	1.00[EUR][1000 genomes]
rs2615251	1.00[EUR][1000 genomes]
rs2733316	1.00[EUR][1000 genomes]
rs2733317	1.00[MEX][hapmap];1.00[EUR][1000 genomes]
rs2733343	1.00[EUR][1000 genomes]
rs2733345	1.00[EUR][1000 genomes]
rs28454221	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34560099	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7183392	0.90[YRI][hapmap]
rs7496293	0.95[YRI][hapmap]
rs935327	1.00[EUR][1000 genomes]
rs935329	1.00[MEX][hapmap];1.00[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	nsv1042486	chr15:57094598-57505992	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
2	nsv904251	chr15:57241970-57575916	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv1045611	chr15:57350965-58070807	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:94 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:57439400-57491600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
2	chr15:57444400-57485600	Weak transcription	Placenta	Placenta
3	chr15:57444400-57507400	Weak transcription	K562	blood
4	chr15:57444600-57490200	Weak transcription	Primary T helper cells PMA-I stimulated	--
5	chr15:57444800-57484200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr15:57444800-57484200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
7	chr15:57445400-57478400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
8	chr15:57447000-57484600	Weak transcription	HUES48 Cell Line	embryonic stem cell
9	chr15:57448000-57483800	Weak transcription	Lung	lung
10	chr15:57450800-57491000	Weak transcription	Left Ventricle	heart
11	chr15:57451000-57477400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr15:57451000-57487800	Weak transcription	Psoas Muscle	Psoas
13	chr15:57451000-57490800	Weak transcription	NHEK	skin
14	chr15:57451200-57475000	Weak transcription	Colon Smooth Muscle	Colon
15	chr15:57451200-57475400	Weak transcription	Adipose Nuclei	Adipose
16	chr15:57451200-57478600	Weak transcription	HMEC	breast
17	chr15:57451200-57484200	Weak transcription	HUES64 Cell Line	embryonic stem cell
18	chr15:57451200-57484200	Weak transcription	Esophagus	oesophagus
19	chr15:57451200-57490400	Weak transcription	Ovary	ovary
20	chr15:57451600-57491200	Weak transcription	Rectal Smooth Muscle	rectum
21	chr15:57451800-57478400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
22	chr15:57452200-57481600	Weak transcription	Fetal Heart	heart
23	chr15:57452400-57475400	Weak transcription	Fetal Lung	lung
24	chr15:57452400-57490400	Weak transcription	Fetal Brain Female	brain
25	chr15:57452800-57470800	Weak transcription	Brain Anterior Caudate	brain
26	chr15:57453800-57485400	Weak transcription	Muscle Satellite Cultured Cells	--
27	chr15:57453800-57524600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
28	chr15:57457200-57499400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
29	chr15:57457400-57478400	Weak transcription	Fetal Muscle Leg	muscle
30	chr15:57458200-57505200	Strong transcription	Fetal Thymus	thymus
31	chr15:57458800-57475000	Weak transcription	Osteobl	bone
32	chr15:57458800-57475600	Weak transcription	HUVEC	blood vessel
33	chr15:57459200-57488600	Weak transcription	HUES6 Cell Line	embryonic stem cell
34	chr15:57459200-57492600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
35	chr15:57459800-57475600	Weak transcription	Fetal Intestine Large	intestine
36	chr15:57459800-57476200	Weak transcription	Rectal Mucosa Donor 29	rectum
37	chr15:57459800-57476600	Weak transcription	Fetal Stomach	stomach
38	chr15:57459800-57477400	Weak transcription	Monocytes-CD14+_RO01746	blood
39	chr15:57459800-57477800	Weak transcription	Primary monocytes fromperipheralblood	blood
40	chr15:57459800-57478400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
41	chr15:57459800-57490200	Weak transcription	HSMMtube	muscle
42	chr15:57460000-57484200	Weak transcription	Primary T helper cells fromperipheralblood	blood
43	chr15:57460400-57481000	Weak transcription	Aorta	Aorta
44	chr15:57460400-57484000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
45	chr15:57460400-57486400	Weak transcription	Fetal Muscle Trunk	muscle
46	chr15:57460600-57470400	Weak transcription	Cortex derived primary cultured neurospheres	brain
47	chr15:57460600-57475600	Weak transcription	Fetal Intestine Small	intestine
48	chr15:57461000-57473600	Weak transcription	Liver	Liver
49	chr15:57461000-57475600	Weak transcription	HepG2	liver
50	chr15:57461000-57475800	Weak transcription	Duodenum Smooth Muscle	Duodenum

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