Variant report

Variant	rs16977165
Chromosome Location	chr15:57251485-57251486
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:57208582..57210610-chr15:57249153..57251996,2	K562	blood:

Variant related genes	Relation type
ENSG00000137871	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs12593585	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12593613	1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12594574	1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1642929	0.86[YRI][hapmap]
rs16953313	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs16977152	1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs16977226	1.00[EUR][1000 genomes]
rs213147	0.85[ASN][1000 genomes]
rs35615435	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3803456	1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs56193354	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs57722526	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58121543	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs58169256	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs60056005	1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs60219100	1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs60972002	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs61382868	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74018413	1.00[EUR][1000 genomes]
rs74018420	1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs74018424	1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs74018426	1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs74018429	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs74018439	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74018441	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs74018460	1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 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	nsv904250	chr15:57225766-57294085	ZNF genes & repeats Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
4	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
5	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
6	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:72 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:57212400-57256000	Weak transcription	Pancreas	Pancrea
2	chr15:57213200-57256000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr15:57222800-57255000	Weak transcription	HMEC	breast
4	chr15:57227600-57260600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr15:57228200-57260600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr15:57229400-57255800	Weak transcription	Fetal Stomach	stomach
7	chr15:57232000-57256000	Weak transcription	Skeletal Muscle Male	skeletal muscle
8	chr15:57238400-57256200	Weak transcription	K562	blood
9	chr15:57241000-57255600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr15:57241200-57251600	Weak transcription	Brain Inferior Temporal Lobe	brain
11	chr15:57241200-57254400	Weak transcription	NHLF	lung
12	chr15:57242200-57256000	Weak transcription	Ovary	ovary
13	chr15:57242600-57252000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr15:57244000-57255800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
15	chr15:57244200-57257800	Weak transcription	Fetal Intestine Small	intestine
16	chr15:57246800-57256000	Weak transcription	Gastric	stomach
17	chr15:57248600-57251800	Enhancers	iPS-18 Cell Line	embryonic stem cell
18	chr15:57248800-57251800	Enhancers	HUES64 Cell Line	embryonic stem cell
19	chr15:57249000-57252000	Enhancers	HUES48 Cell Line	embryonic stem cell
20	chr15:57249200-57251600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
21	chr15:57249200-57252400	Enhancers	Dnd41	blood
22	chr15:57249400-57251600	Weak transcription	Osteobl	bone
23	chr15:57249400-57254600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
24	chr15:57249400-57256000	Weak transcription	Aorta	Aorta
25	chr15:57249800-57251800	Enhancers	HUES6 Cell Line	embryonic stem cell
26	chr15:57249800-57251800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
27	chr15:57249800-57252000	Enhancers	Liver	Liver
28	chr15:57249800-57252200	Enhancers	Primary T helper cells fromperipheralblood	blood
29	chr15:57250000-57251600	Enhancers	Thymus	Thymus
30	chr15:57250000-57251800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
31	chr15:57250000-57252000	Enhancers	Fetal Thymus	thymus
32	chr15:57250000-57252200	Enhancers	Primary T helper cells PMA-I stimulated	--
33	chr15:57250000-57252400	Enhancers	Primary T helper naive cells from peripheral blood	blood
34	chr15:57250000-57256200	Weak transcription	Primary B cells from cord blood	blood
35	chr15:57250200-57251600	Enhancers	Brain Substantia Nigra	brain
36	chr15:57250200-57251800	Enhancers	iPS-15b Cell Line	embryonic stem cell
37	chr15:57250200-57251800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
38	chr15:57250200-57251800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
39	chr15:57250200-57251800	Enhancers	Fetal Heart	heart
40	chr15:57250200-57252200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
41	chr15:57250200-57252400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
42	chr15:57250400-57251800	Enhancers	ES-I3 Cell Line	embryonic stem cell
43	chr15:57250400-57252000	Enhancers	Primary T killer memory cells from peripheral blood	blood
44	chr15:57250600-57252000	Enhancers	Brain Hippocampus Middle	brain
45	chr15:57250600-57252600	Enhancers	Primary T cells from cord blood	blood
46	chr15:57250600-57253000	Enhancers	GM12878-XiMat	blood
47	chr15:57250600-57254400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
48	chr15:57250600-57254600	Weak transcription	Brain Angular Gyrus	brain
49	chr15:57250600-57254800	Weak transcription	Brain Cingulate Gyrus	brain
50	chr15:57250600-57256000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

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