Variant report

Variant	rs2439917
Chromosome Location	chr15:57317519-57317520
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:57316485..57318733-chr15:57320688..57323136,2	K562	blood:
2	chr15:57315197..57318733-chr15:57320688..57324516,3	K562	blood:
3	chr15:57310993..57315176-chr15:57315668..57319705,4	K562	blood:

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs12595074	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2470085	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2951905	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2951907	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2962988	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs3087567	0.90[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs55910715	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs72751006	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs72751008	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs72751021	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs8023315	0.89[AFR][1000 genomes]
rs8037322	0.81[AMR][1000 genomes];0.85[EUR][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:68 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:57303600-57317600	Weak transcription	Duodenum Smooth Muscle	Duodenum
2	chr15:57307800-57323400	Weak transcription	Pancreas	Pancrea
3	chr15:57308000-57328000	Weak transcription	Gastric	stomach
4	chr15:57308800-57323400	Weak transcription	Small Intestine	intestine
5	chr15:57309200-57323400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr15:57309400-57323000	Weak transcription	Primary hematopoietic stem cells	blood
7	chr15:57309400-57334600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr15:57309600-57323200	Weak transcription	Thymus	Thymus
9	chr15:57310800-57323400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
10	chr15:57311000-57347000	Weak transcription	Fetal Intestine Large	intestine
11	chr15:57312000-57317600	Weak transcription	NHEK	skin
12	chr15:57312000-57318600	Weak transcription	Aorta	Aorta
13	chr15:57312400-57317600	Weak transcription	A549	lung
14	chr15:57312400-57317600	Weak transcription	HSMM	muscle
15	chr15:57312400-57323000	Weak transcription	K562	blood
16	chr15:57312600-57317600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr15:57312600-57317600	Weak transcription	NH-A	brain
18	chr15:57312600-57317800	Weak transcription	Colon Smooth Muscle	Colon
19	chr15:57312800-57317600	Weak transcription	Brain Substantia Nigra	brain
20	chr15:57312800-57317600	Weak transcription	Osteobl	bone
21	chr15:57313800-57317600	Weak transcription	NHDF-Ad	bronchial
22	chr15:57314000-57318200	Weak transcription	Brain Angular Gyrus	brain
23	chr15:57314200-57318000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr15:57315600-57319800	Weak transcription	Primary T cells from cord blood	blood
25	chr15:57315600-57328200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
26	chr15:57315600-57328600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
27	chr15:57315800-57323000	Weak transcription	Primary T helper cells PMA-I stimulated	--
28	chr15:57316000-57317800	Strong transcription	Fetal Thymus	thymus
29	chr15:57316000-57323400	Weak transcription	Primary B cells from cord blood	blood
30	chr15:57316200-57323000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
31	chr15:57316200-57323400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
32	chr15:57316200-57323400	Weak transcription	Fetal Muscle Leg	muscle
33	chr15:57316400-57324000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
34	chr15:57316400-57328200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
35	chr15:57316400-57345400	Weak transcription	Fetal Intestine Small	intestine
36	chr15:57316600-57327800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
37	chr15:57316800-57318200	Enhancers	HUES48 Cell Line	embryonic stem cell
38	chr15:57316800-57318200	Weak transcription	Right Ventricle	heart
39	chr15:57316800-57318400	Enhancers	Brain Germinal Matrix	brain
40	chr15:57316800-57318400	Flanking Active TSS	Hela-S3	cervix
41	chr15:57316800-57318600	Enhancers	HUES64 Cell Line	embryonic stem cell
42	chr15:57316800-57318600	Enhancers	Brain Inferior Temporal Lobe	brain
43	chr15:57317000-57317800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
44	chr15:57317000-57318800	Enhancers	Brain Hippocampus Middle	brain
45	chr15:57317000-57319000	Enhancers	Fetal Lung	lung
46	chr15:57317200-57317600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
47	chr15:57317200-57317600	Enhancers	Esophagus	oesophagus
48	chr15:57317200-57317600	Enhancers	Psoas Muscle	Psoas
49	chr15:57317200-57317800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
50	chr15:57317200-57318000	Weak transcription	HepG2	liver

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links