Variant report

Variant	rs2733169
Chromosome Location	chr15:57320492-57320493
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs1652733	1.00[AMR][1000 genomes]
rs213154	1.00[AMR][1000 genomes]
rs2243575	0.93[AFR][1000 genomes]
rs2430963	1.00[AMR][1000 genomes]
rs2435898	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2435900	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2435901	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2435902	1.00[AMR][1000 genomes]
rs2435904	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2439923	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2543676	1.00[AMR][1000 genomes]
rs2566839	1.00[AMR][1000 genomes]
rs2566841	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2566847	0.87[AFR][1000 genomes]
rs2566852	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2585074	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2585085	0.93[AFR][1000 genomes]
rs2585092	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2585095	0.93[AFR][1000 genomes]
rs2585096	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2585100	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2585101	0.93[AFR][1000 genomes]
rs2585109	0.87[AFR][1000 genomes]
rs2585111	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2585119	1.00[AMR][1000 genomes]
rs2585122	1.00[AMR][1000 genomes]
rs2593213	0.87[AFR][1000 genomes]
rs2593214	0.81[AFR][1000 genomes]
rs2593224	1.00[AMR][1000 genomes]
rs2593227	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2593240	1.00[AMR][1000 genomes]
rs2615234	0.93[AFR][1000 genomes]
rs2615248	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2703591	1.00[AMR][1000 genomes]
rs2703603	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2703606	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2703609	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2703615	0.87[AFR][1000 genomes]
rs2703618	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2703622	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2703625	0.81[AFR][1000 genomes]
rs2733173	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2733175	0.87[AFR][1000 genomes]
rs2733186	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2733190	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2733193	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2733196	1.00[AMR][1000 genomes]
rs2733308	0.87[AFR][1000 genomes]
rs2733338	0.87[AFR][1000 genomes]
rs2733344	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2920271	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 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	nsv542393	chr15:57115116-57341363	Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
3	nsv1052052	chr15:57232111-57344561	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
4	nsv542394	chr15:57232111-57344561	Enhancers Weak transcription Genic enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
5	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

No data

Chromatin state (count:70 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:57307800-57323400	Weak transcription	Pancreas	Pancrea
2	chr15:57308000-57328000	Weak transcription	Gastric	stomach
3	chr15:57308800-57323400	Weak transcription	Small Intestine	intestine
4	chr15:57309200-57323400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr15:57309400-57323000	Weak transcription	Primary hematopoietic stem cells	blood
6	chr15:57309400-57334600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr15:57309600-57323200	Weak transcription	Thymus	Thymus
8	chr15:57310800-57323400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
9	chr15:57311000-57347000	Weak transcription	Fetal Intestine Large	intestine
10	chr15:57312400-57323000	Weak transcription	K562	blood
11	chr15:57315600-57328200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
12	chr15:57315600-57328600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
13	chr15:57315800-57323000	Weak transcription	Primary T helper cells PMA-I stimulated	--
14	chr15:57316000-57323400	Weak transcription	Primary B cells from cord blood	blood
15	chr15:57316200-57323000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
16	chr15:57316200-57323400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
17	chr15:57316200-57323400	Weak transcription	Fetal Muscle Leg	muscle
18	chr15:57316400-57324000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr15:57316400-57328200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr15:57316400-57345400	Weak transcription	Fetal Intestine Small	intestine
21	chr15:57316600-57327800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
22	chr15:57317600-57322400	Weak transcription	Psoas Muscle	Psoas
23	chr15:57317600-57326200	Weak transcription	Esophagus	oesophagus
24	chr15:57317800-57323000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
25	chr15:57318200-57323200	Weak transcription	HUES48 Cell Line	embryonic stem cell
26	chr15:57318200-57323400	Weak transcription	Left Ventricle	heart
27	chr15:57318400-57322600	Weak transcription	Cortex derived primary cultured neurospheres	brain
28	chr15:57318400-57323000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
29	chr15:57318400-57323000	Weak transcription	HepG2	liver
30	chr15:57318400-57323200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
31	chr15:57318400-57323200	Weak transcription	Brain Germinal Matrix	brain
32	chr15:57318400-57323400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
33	chr15:57318400-57323400	Weak transcription	Stomach Smooth Muscle	stomach
34	chr15:57318600-57321800	Weak transcription	Brain Inferior Temporal Lobe	brain
35	chr15:57318600-57322400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
36	chr15:57318600-57322800	Weak transcription	HUES64 Cell Line	embryonic stem cell
37	chr15:57318600-57323000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
38	chr15:57318600-57323000	Weak transcription	Muscle Satellite Cultured Cells	--
39	chr15:57318600-57323000	Weak transcription	Skeletal Muscle Male	skeletal muscle
40	chr15:57318600-57323000	Weak transcription	Skeletal Muscle Female	skeletal muscle
41	chr15:57318600-57323000	Weak transcription	NHDF-Ad	bronchial
42	chr15:57318600-57323200	Weak transcription	Duodenum Smooth Muscle	Duodenum
43	chr15:57318600-57323200	Weak transcription	HSMM	muscle
44	chr15:57318600-57323200	Weak transcription	Osteobl	bone
45	chr15:57318600-57323400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
46	chr15:57318600-57323400	Weak transcription	Fetal Stomach	stomach
47	chr15:57318600-57323400	Weak transcription	Ovary	ovary
48	chr15:57318600-57323400	Weak transcription	Right Ventricle	heart
49	chr15:57318600-57323400	Weak transcription	Sigmoid Colon	Sigmoid Colon
50	chr15:57318600-57323800	Weak transcription	Monocytes-CD14+_RO01746	blood

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