Variant report

Variant	rs57955952
Chromosome Location	chr10:20124665-20124666
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs56790888	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56996168	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59143081	0.90[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs61127305	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61191149	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61588436	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7084739	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73597614	0.83[AMR][1000 genomes]
rs73597616	0.86[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs73597617	0.86[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs73597618	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs73597619	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73597621	1.00[AMR][1000 genomes]
rs73597622	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73597623	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73599696	0.90[AFR][1000 genomes]
rs73599697	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73599702	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73601604	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73601605	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73601607	0.83[AMR][1000 genomes]
rs73601608	0.83[AMR][1000 genomes]
rs73601610	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73601612	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs73601614	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73601616	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73601618	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs7903164	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7918855	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7922604	0.88[AFR][1000 genomes];0.85[AMR][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	nsv1049295	chr10:19740296-20509036	Weak transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
2	nsv1044794	chr10:20010269-20391329	Enhancers Weak transcription Bivalent/Poised TSS Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv540510	chr10:20010269-20391329	Weak transcription Enhancers Genic enhancers Bivalent/Poised TSS Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv1038966	chr10:20010469-20391190	Enhancers Active TSS Flanking Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	nsv540511	chr10:20010469-20391190	Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	nsv1037055	chr10:20010469-20651965	Enhancers Bivalent/Poised TSS Weak transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
7	nsv540512	chr10:20010469-20651965	Weak transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer 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:47 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:20110400-20151400	Weak transcription	Fetal Intestine Small	intestine
2	chr10:20114000-20125200	Weak transcription	Fetal Kidney	kidney
3	chr10:20115200-20154000	Weak transcription	Primary hematopoietic stem cells	blood
4	chr10:20118200-20136200	Weak transcription	Colon Smooth Muscle	Colon
5	chr10:20118600-20126200	Weak transcription	H1 Cell Line	embryonic stem cell
6	chr10:20119800-20127800	Weak transcription	Aorta	Aorta
7	chr10:20122000-20128000	Weak transcription	Ovary	ovary
8	chr10:20122200-20132600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr10:20122400-20125400	Weak transcription	Brain Angular Gyrus	brain
10	chr10:20122400-20125600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr10:20122400-20125600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
12	chr10:20122400-20126000	Weak transcription	Brain Cingulate Gyrus	brain
13	chr10:20122400-20126200	Weak transcription	Brain Inferior Temporal Lobe	brain
14	chr10:20122400-20126400	Weak transcription	Adipose Nuclei	Adipose
15	chr10:20122400-20127800	Weak transcription	Right Atrium	heart
16	chr10:20122400-20128000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
17	chr10:20122400-20131200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
18	chr10:20122400-20132600	Weak transcription	Psoas Muscle	Psoas
19	chr10:20122400-20133600	Weak transcription	Left Ventricle	heart
20	chr10:20122600-20125200	Weak transcription	HUES48 Cell Line	embryonic stem cell
21	chr10:20122600-20125200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
22	chr10:20122600-20126000	Weak transcription	Brain Substantia Nigra	brain
23	chr10:20122600-20131400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr10:20122600-20136000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
25	chr10:20122800-20125600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
26	chr10:20122800-20125800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
27	chr10:20122800-20149000	Weak transcription	Primary monocytes fromperipheralblood	blood
28	chr10:20123000-20125800	Weak transcription	Monocytes-CD14+_RO01746	blood
29	chr10:20123200-20124800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
30	chr10:20123200-20126400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
31	chr10:20123200-20126400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
32	chr10:20123400-20125600	Enhancers	Breast Myoepithelial Primary Cells	Breast
33	chr10:20123600-20125000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
34	chr10:20123800-20125600	Weak transcription	HMEC	breast
35	chr10:20124000-20124800	Enhancers	H9 Cell Line	embryonic stem cell
36	chr10:20124000-20124800	Enhancers	Placenta	Placenta
37	chr10:20124000-20124800	Enhancers	Right Ventricle	heart
38	chr10:20124000-20125400	Weak transcription	Fetal Lung	lung
39	chr10:20124400-20124800	Enhancers	Brain Anterior Caudate	brain
40	chr10:20124400-20125200	Weak transcription	HUES64 Cell Line	embryonic stem cell
41	chr10:20124400-20125400	Weak transcription	HUES6 Cell Line	embryonic stem cell
42	chr10:20124400-20125400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
43	chr10:20124400-20126800	Enhancers	iPS-15b Cell Line	embryonic stem cell
44	chr10:20124400-20126800	Enhancers	Brain Hippocampus Middle	brain
45	chr10:20124400-20128400	Weak transcription	Esophagus	oesophagus
46	chr10:20124600-20124800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
47	chr10:20124600-20124800	Enhancers	Lung	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links