Variant report

Variant	rs2387407
Chromosome Location	chr10:6547909-6547910
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:6545334..6548106-chr10:6549054..6551114,2	K562	blood:
2	chr10:6531681..6534268-chr10:6546145..6550196,3	K562	blood:
3	chr10:6546427..6548106-chr10:6549614..6551845,2	K562	blood:

Extended variants
information (count: 13 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs500766	0.82[JPT][hapmap]
rs563798	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs586355	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs606289	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs619125	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs627715	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs657701	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs667254	0.82[JPT][hapmap]
rs676674	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 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	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
3	nsv1047309	chr10:6495583-6714060	Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
4	nsv5687	chr10:6537209-6556751	Genic enhancers Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Enhancers Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:56 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:6499200-6562000	Weak transcription	Brain Anterior Caudate	brain
2	chr10:6501800-6557000	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr10:6510000-6572000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
4	chr10:6517200-6557800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr10:6518200-6556800	Weak transcription	Fetal Intestine Large	intestine
6	chr10:6526600-6553000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr10:6529000-6552800	Weak transcription	Lung	lung
8	chr10:6530400-6552600	Weak transcription	K562	blood
9	chr10:6533800-6552800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
10	chr10:6535400-6553400	Weak transcription	Gastric	stomach
11	chr10:6536600-6552800	Weak transcription	Fetal Intestine Small	intestine
12	chr10:6537400-6552800	Weak transcription	Fetal Stomach	stomach
13	chr10:6537600-6552600	Weak transcription	HUES48 Cell Line	embryonic stem cell
14	chr10:6537800-6548600	Weak transcription	Brain Hippocampus Middle	brain
15	chr10:6537800-6548800	Weak transcription	Brain Cingulate Gyrus	brain
16	chr10:6538200-6552800	Weak transcription	H1 Cell Line	embryonic stem cell
17	chr10:6540200-6548800	Weak transcription	Brain Inferior Temporal Lobe	brain
18	chr10:6540800-6552200	Weak transcription	HUES64 Cell Line	embryonic stem cell
19	chr10:6540800-6552800	Weak transcription	H9 Cell Line	embryonic stem cell
20	chr10:6540800-6556600	Weak transcription	Fetal Muscle Trunk	muscle
21	chr10:6541400-6551000	Strong transcription	Primary hematopoietic stem cells	blood
22	chr10:6541400-6552800	Weak transcription	Fetal Muscle Leg	muscle
23	chr10:6541600-6555200	Strong transcription	Primary T cells from cord blood	blood
24	chr10:6541800-6548800	Weak transcription	HUES6 Cell Line	embryonic stem cell
25	chr10:6542000-6553000	Strong transcription	Fetal Thymus	thymus
26	chr10:6543000-6555000	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
27	chr10:6543200-6554600	Weak transcription	Pancreatic Islets	Pancreatic Islet
28	chr10:6544200-6552800	Weak transcription	Skeletal Muscle Male	skeletal muscle
29	chr10:6544600-6552800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
30	chr10:6544600-6553000	Weak transcription	Pancreas	Pancrea
31	chr10:6544600-6558200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
32	chr10:6544800-6548000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
33	chr10:6545000-6548600	Weak transcription	Dnd41	blood
34	chr10:6545200-6552800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
35	chr10:6545200-6554800	Weak transcription	Psoas Muscle	Psoas
36	chr10:6545400-6548400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
37	chr10:6545800-6549200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
38	chr10:6546000-6550800	Genic enhancers	Primary T helper cells PMA-I stimulated	--
39	chr10:6546400-6548000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
40	chr10:6546400-6552800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
41	chr10:6546600-6548800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
42	chr10:6546600-6548800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
43	chr10:6546600-6548800	Weak transcription	Thymus	Thymus
44	chr10:6546600-6550400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
45	chr10:6546800-6548000	Enhancers	Primary T cells fromperipheralblood	blood
46	chr10:6546800-6552800	Weak transcription	NHEK	skin
47	chr10:6546800-6561200	Weak transcription	HMEC	breast
48	chr10:6547200-6549200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
49	chr10:6547200-6554200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
50	chr10:6547400-6551200	Strong transcription	Skeletal Muscle Female	skeletal muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links