Variant report

Variant	rs58020313
Chromosome Location	chr17:16200405-16200406
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr17:16194799..16198455-chr17:16198846..16202251,3	K562	blood:
2	chr17:16115990..16118934-chr17:16198815..16201577,2	MCF-7	breast:
3	chr17:16198554..16200969-chr17:16344416..16346385,2	K562	blood:
4	chr17:16188324..16192785-chr17:16195612..16200767,7	K562	blood:
5	chr17:16196597..16198455-chr17:16199967..16201476,2	K562	blood:

Variant related genes	Relation type
ENSG00000175061	Chromatin interaction
ENSG00000141027	Chromatin interaction

Extended variants
information (count: 11 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs3815037	1.00[AMR][1000 genomes]
rs58144323	1.00[AMR][1000 genomes]
rs61314420	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	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
2	esv3330182	chr17:15652014-16569534	Strong transcription Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	177 gene(s)	inside rSNPs	diseases
3	esv3446844	chr17:15654843-16572246	Enhancers Strong transcription Flanking Active TSS Weak transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	177 gene(s)	inside rSNPs	diseases
4	nsv1063459	chr17:15804228-16543593	Weak transcription Flanking Active TSS Genic enhancers Enhancers ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	164 gene(s)	inside rSNPs	diseases
5	nsv907715	chr17:16019978-16206540	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	44 gene(s)	inside rSNPs	diseases
6	nsv907717	chr17:16076898-16239832	Weak transcription Enhancers ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	44 gene(s)	inside rSNPs	diseases
7	esv3326983	chr17:16138963-16210147	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA	21 gene(s)	inside rSNPs	diseases
8	nsv1063764	chr17:16171649-16662914	Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	120 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:102 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:16166200-16205400	Weak transcription	Brain Hippocampus Middle	brain
2	chr17:16181200-16205400	Weak transcription	Dnd41	blood
3	chr17:16187200-16205200	Weak transcription	Brain Inferior Temporal Lobe	brain
4	chr17:16189400-16216600	Weak transcription	Fetal Brain Female	brain
5	chr17:16190200-16200800	Weak transcription	H1 Cell Line	embryonic stem cell
6	chr17:16190200-16200800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr17:16190200-16200800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr17:16190200-16201000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr17:16190400-16203000	Weak transcription	Left Ventricle	heart
10	chr17:16190600-16203000	Weak transcription	Ovary	ovary
11	chr17:16190600-16205000	Weak transcription	Lung	lung
12	chr17:16190600-16205200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr17:16190600-16229600	Weak transcription	Brain Cingulate Gyrus	brain
14	chr17:16190800-16200600	Weak transcription	HUES48 Cell Line	embryonic stem cell
15	chr17:16190800-16201000	Weak transcription	Spleen	Spleen
16	chr17:16190800-16203000	Weak transcription	Fetal Muscle Leg	muscle
17	chr17:16190800-16204200	Weak transcription	Brain Anterior Caudate	brain
18	chr17:16190800-16205000	Weak transcription	Skeletal Muscle Male	skeletal muscle
19	chr17:16190800-16205200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
20	chr17:16190800-16205200	Weak transcription	NHEK	skin
21	chr17:16190800-16216400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
22	chr17:16190800-16220800	Weak transcription	Aorta	Aorta
23	chr17:16191000-16203000	Weak transcription	Stomach Smooth Muscle	stomach
24	chr17:16191200-16200600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
25	chr17:16191200-16200800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
26	chr17:16191400-16203200	Weak transcription	Fetal Stomach	stomach
27	chr17:16191400-16205200	Weak transcription	Skeletal Muscle Female	skeletal muscle
28	chr17:16191400-16218400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
29	chr17:16191400-16219400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
30	chr17:16191400-16226000	Weak transcription	HSMMtube	muscle
31	chr17:16191600-16200600	Weak transcription	Fetal Lung	lung
32	chr17:16191600-16203200	Weak transcription	Adipose Nuclei	Adipose
33	chr17:16191600-16204000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
34	chr17:16191600-16205200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
35	chr17:16191600-16216800	Weak transcription	Fetal Kidney	kidney
36	chr17:16191800-16203000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
37	chr17:16191800-16204000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
38	chr17:16191800-16205000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
39	chr17:16191800-16205000	Weak transcription	Placenta	Placenta
40	chr17:16191800-16205400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
41	chr17:16191800-16217200	Weak transcription	HSMM	muscle
42	chr17:16192600-16203200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
43	chr17:16192600-16205200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
44	chr17:16192800-16200600	Weak transcription	Primary hematopoietic stem cells	blood
45	chr17:16192800-16201200	Weak transcription	Thymus	Thymus
46	chr17:16192800-16203200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
47	chr17:16192800-16229000	Weak transcription	Monocytes-CD14+_RO01746	blood
48	chr17:16193000-16200600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr17:16193000-16205200	Weak transcription	Muscle Satellite Cultured Cells	--
50	chr17:16193000-16205200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links