Variant report

Variant	rs593608
Chromosome Location	chr10:6485871-6485872
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs11814744	0.93[YRI][hapmap]
rs11816284	0.84[YRI][hapmap]
rs11817284	0.92[YRI][hapmap]
rs4750429	0.82[EUR][1000 genomes]
rs4750432	0.82[EUR][1000 genomes]
rs539103	1.00[EUR][1000 genomes]
rs601512	1.00[EUR][1000 genomes]
rs602419	0.90[EUR][1000 genomes]
rs615256	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs616080	1.00[EUR][1000 genomes]
rs619761	0.90[EUR][1000 genomes]
rs629244	1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs630196	1.00[ASW][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs636819	1.00[CHD][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs637297	1.00[EUR][1000 genomes]
rs648072	0.90[EUR][1000 genomes]
rs651486	1.00[EUR][1000 genomes]
rs658344	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6602704	1.00[EUR][1000 genomes]
rs663532	1.00[EUR][1000 genomes]
rs670804	0.93[YRI][hapmap]
rs673964	1.00[YRI][hapmap]
rs687083	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs688853	1.00[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1042286	chr10:5795129-6578445	Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
2	nsv1054044	chr10:6155144-6487217	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
3	nsv1053440	chr10:6354798-6669469	Enhancers Flanking Active TSS Strong transcription Weak transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:55 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:6456200-6496600	Weak transcription	Pancreas	Pancrea
2	chr10:6464200-6487200	Strong transcription	Fetal Thymus	thymus
3	chr10:6464600-6490600	Strong transcription	Primary T cells from cord blood	blood
4	chr10:6464800-6487400	Strong transcription	Thymus	Thymus
5	chr10:6465800-6486600	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
6	chr10:6465800-6496200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr10:6465800-6496600	Weak transcription	Psoas Muscle	Psoas
8	chr10:6465800-6501400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr10:6466000-6486600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
10	chr10:6466400-6487800	Weak transcription	Fetal Stomach	stomach
11	chr10:6467000-6487200	Strong transcription	Primary T cells fromperipheralblood	blood
12	chr10:6467400-6496200	Weak transcription	Lung	lung
13	chr10:6467600-6487600	Strong transcription	Primary T helper cells fromperipheralblood	blood
14	chr10:6467800-6486000	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
15	chr10:6467800-6487000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
16	chr10:6467800-6487400	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
17	chr10:6467800-6487600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
18	chr10:6468000-6487600	Strong transcription	Primary T helper cells PMA-I stimulated	--
19	chr10:6468000-6487800	Weak transcription	Brain Angular Gyrus	brain
20	chr10:6468200-6496800	Weak transcription	H1 Cell Line	embryonic stem cell
21	chr10:6471200-6490200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
22	chr10:6473600-6487800	Weak transcription	Brain Inferior Temporal Lobe	brain
23	chr10:6474200-6490400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
24	chr10:6474400-6487400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
25	chr10:6477400-6487800	Weak transcription	HUES48 Cell Line	embryonic stem cell
26	chr10:6477400-6503600	Weak transcription	Gastric	stomach
27	chr10:6478800-6491000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
28	chr10:6479200-6487400	Weak transcription	Brain Anterior Caudate	brain
29	chr10:6479800-6487800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
30	chr10:6480200-6486800	Strong transcription	Dnd41	blood
31	chr10:6480200-6501000	Weak transcription	Ovary	ovary
32	chr10:6480800-6497600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
33	chr10:6481200-6500200	Weak transcription	Fetal Intestine Small	intestine
34	chr10:6481400-6497800	Weak transcription	Fetal Muscle Trunk	muscle
35	chr10:6483200-6487600	Weak transcription	Brain Substantia Nigra	brain
36	chr10:6484000-6489400	Weak transcription	HUES6 Cell Line	embryonic stem cell
37	chr10:6484000-6489400	Weak transcription	Fetal Muscle Leg	muscle
38	chr10:6484000-6496200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
39	chr10:6484200-6487800	Weak transcription	Brain Cingulate Gyrus	brain
40	chr10:6484200-6487800	Weak transcription	Skeletal Muscle Male	skeletal muscle
41	chr10:6484200-6496200	Weak transcription	H9 Cell Line	embryonic stem cell
42	chr10:6484200-6496400	Weak transcription	HUES64 Cell Line	embryonic stem cell
43	chr10:6484400-6487800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
44	chr10:6484600-6487800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
45	chr10:6484600-6489400	Weak transcription	Skeletal Muscle Female	skeletal muscle
46	chr10:6484600-6496600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
47	chr10:6484800-6487400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
48	chr10:6485400-6487800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
49	chr10:6485400-6487800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
50	chr10:6485400-6487800	Weak transcription	K562	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links