Variant report

Variant	rs55657306
Chromosome Location	chr17:15618348-15618349
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs1563010	1.00[AFR][1000 genomes]
rs2159084	1.00[AFR][1000 genomes]
rs55992307	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62071725	0.94[AMR][1000 genomes]
rs72819890	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs72819895	0.89[EUR][1000 genomes]
rs72819896	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs72819900	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs72821706	1.00[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv916652	chr17:15093600-15856310	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
2	nsv1059056	chr17:15294011-15856861	Strong transcription Weak transcription Active TSS Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
3	nsv934185	chr17:15552960-16551197	ZNF genes & repeats Enhancers Flanking Active TSS Weak transcription Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	190 gene(s)	inside rSNPs	diseases
4	nsv520426	chr17:15554561-15647723	Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
5	nsv1062951	chr17:15561070-15890644	Weak transcription Strong transcription Active TSS ZNF genes & repeats Enhancers Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
6	nsv1066023	chr17:15607267-16053512	Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
7	nsv907705	chr17:15611495-15717546	ZNF genes & repeats Active TSS Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:62 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:15603600-15619200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr17:15604200-15623800	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr17:15604400-15623800	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr17:15604800-15623400	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
5	chr17:15607000-15623400	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
6	chr17:15608200-15621200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr17:15608400-15623800	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
8	chr17:15608400-15623800	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr17:15610400-15619000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
10	chr17:15612000-15621200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr17:15612200-15618800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
12	chr17:15612200-15619200	Weak transcription	Psoas Muscle	Psoas
13	chr17:15612400-15618600	Weak transcription	Brain Inferior Temporal Lobe	brain
14	chr17:15612400-15618800	Weak transcription	Colon Smooth Muscle	Colon
15	chr17:15612400-15618800	Weak transcription	Skeletal Muscle Female	skeletal muscle
16	chr17:15612400-15619000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
17	chr17:15612400-15619000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr17:15612400-15619000	Weak transcription	Brain Angular Gyrus	brain
19	chr17:15612400-15619000	Weak transcription	Stomach Smooth Muscle	stomach
20	chr17:15612400-15619200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
21	chr17:15612400-15620200	Weak transcription	Brain Cingulate Gyrus	brain
22	chr17:15612400-15620400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
23	chr17:15612400-15620400	Weak transcription	Fetal Brain Male	brain
24	chr17:15612400-15620600	Weak transcription	Placenta	Placenta
25	chr17:15612600-15619000	Weak transcription	HSMM	muscle
26	chr17:15614200-15623600	ZNF genes & repeats	H1 Cell Line	embryonic stem cell
27	chr17:15614600-15621200	ZNF genes & repeats	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
28	chr17:15614600-15623400	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
29	chr17:15614600-15623400	ZNF genes & repeats	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
30	chr17:15614800-15621000	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
31	chr17:15614800-15623400	ZNF genes & repeats	iPS-18 Cell Line	embryonic stem cell
32	chr17:15615000-15619400	Weak transcription	Fetal Muscle Trunk	muscle
33	chr17:15615000-15620000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
34	chr17:15615200-15619000	Weak transcription	Primary B cells from cord blood	blood
35	chr17:15615200-15619000	Weak transcription	Primary hematopoietic stem cells	blood
36	chr17:15615200-15619000	Weak transcription	Brain Germinal Matrix	brain
37	chr17:15615200-15619000	Weak transcription	Brain Hippocampus Middle	brain
38	chr17:15615200-15619200	Weak transcription	Left Ventricle	heart
39	chr17:15615400-15619000	Weak transcription	Fetal Intestine Large	intestine
40	chr17:15615400-15620600	Weak transcription	Cortex derived primary cultured neurospheres	brain
41	chr17:15616000-15622000	ZNF genes & repeats	Liver	Liver
42	chr17:15616200-15621200	ZNF genes & repeats	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
43	chr17:15616400-15620800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
44	chr17:15616600-15619000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
45	chr17:15616600-15619000	Weak transcription	Fetal Muscle Leg	muscle
46	chr17:15616600-15619400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
47	chr17:15616800-15619000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
48	chr17:15616800-15619000	Weak transcription	Muscle Satellite Cultured Cells	--
49	chr17:15616800-15619400	Weak transcription	NH-A	brain
50	chr17:15616800-15620800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links