Variant report

Variant	rs6482455
Chromosome Location	chr10:25200457-25200458
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:25010643..25013376-chr10:25200218..25202195,2	K562	blood:
2	chr10:25195531..25198716-chr10:25198816..25202257,4	K562	blood:

Variant related genes	Relation type
ENSG00000240294	Chromatin interaction
ENSG00000107863	Chromatin interaction

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10828735	1.00[JPT][hapmap]
rs11014282	0.83[ASN][1000 genomes]
rs11014306	1.00[CEU][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11014307	1.00[CEU][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11014308	1.00[CEU][hapmap];1.00[GIH][hapmap];0.90[MEX][hapmap];0.82[MKK][hapmap];0.95[TSI][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11014309	1.00[CEU][hapmap];1.00[GIH][hapmap];0.90[MEX][hapmap];0.82[MKK][hapmap];0.95[TSI][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12255703	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12256206	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12257709	0.83[ASN][1000 genomes]
rs1409306	1.00[CEU][hapmap];1.00[JPT][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]
rs16925135	0.83[ASN][1000 genomes]
rs16925138	0.83[ASN][1000 genomes]
rs16925145	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2220708	1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs4504964	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57654443	1.00[ASN][1000 genomes]
rs57681668	0.83[ASN][1000 genomes]
rs59876862	1.00[ASN][1000 genomes]
rs61854283	0.83[ASN][1000 genomes]
rs6482453	0.81[CEU][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6482454	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6482465	1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs7072126	0.81[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7075926	1.00[ASN][1000 genomes]
rs7078660	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7080496	0.83[ASN][1000 genomes]
rs7084900	1.00[CEU][hapmap];1.00[JPT][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]
rs7087994	0.81[CEU][hapmap];1.00[JPT][hapmap]
rs7100005	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs729141	1.00[JPT][hapmap]
rs73606586	1.00[ASN][1000 genomes]
rs73606590	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73606602	1.00[ASN][1000 genomes]
rs73608205	1.00[ASN][1000 genomes]
rs7905478	1.00[ASN][1000 genomes]
rs7910241	0.91[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];0.90[MEX][hapmap];0.97[MKK][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7918015	1.00[CEU][hapmap];0.86[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1053278	chr10:25140776-25269093	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer 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

No data

Chromatin state (count:46 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:25191400-25200800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
2	chr10:25191600-25200800	Weak transcription	Primary T helper cells PMA-I stimulated	--
3	chr10:25191600-25201400	Weak transcription	Fetal Lung	lung
4	chr10:25191600-25202600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr10:25191600-25240600	Weak transcription	Stomach Smooth Muscle	stomach
6	chr10:25192200-25204400	Weak transcription	Brain Inferior Temporal Lobe	brain
7	chr10:25193400-25210200	Weak transcription	Cortex derived primary cultured neurospheres	brain
8	chr10:25195200-25203400	Weak transcription	Aorta	Aorta
9	chr10:25195400-25223400	Weak transcription	Fetal Brain Female	brain
10	chr10:25196400-25212000	Weak transcription	Fetal Stomach	stomach
11	chr10:25197200-25202000	Enhancers	K562	blood
12	chr10:25197400-25205400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr10:25197800-25201600	Weak transcription	Gastric	stomach
14	chr10:25197800-25204600	Weak transcription	Rectal Mucosa Donor 31	rectum
15	chr10:25198000-25200800	Weak transcription	Duodenum Mucosa	Duodenum
16	chr10:25198000-25201400	Weak transcription	NHLF	lung
17	chr10:25198000-25204200	Weak transcription	Brain Angular Gyrus	brain
18	chr10:25198200-25201600	Weak transcription	Small Intestine	intestine
19	chr10:25198200-25204200	Weak transcription	Brain Cingulate Gyrus	brain
20	chr10:25198200-25228000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
21	chr10:25198400-25201200	Weak transcription	HUVEC	blood vessel
22	chr10:25198400-25202800	Weak transcription	Osteobl	bone
23	chr10:25198400-25203800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
24	chr10:25198400-25204600	Weak transcription	Fetal Intestine Small	intestine
25	chr10:25198400-25217800	Weak transcription	Duodenum Smooth Muscle	Duodenum
26	chr10:25198600-25201200	Weak transcription	Muscle Satellite Cultured Cells	--
27	chr10:25198800-25202600	Weak transcription	Stomach Mucosa	stomach
28	chr10:25199000-25201200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
29	chr10:25199000-25201800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
30	chr10:25199000-25201800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
31	chr10:25199000-25210200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
32	chr10:25199200-25201400	Weak transcription	HMEC	breast
33	chr10:25199200-25201600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
34	chr10:25199200-25210000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
35	chr10:25199400-25201200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
36	chr10:25199600-25201200	Weak transcription	NHEK	skin
37	chr10:25199800-25201400	Enhancers	Primary B cells from peripheral blood	blood
38	chr10:25199800-25201800	Enhancers	Primary hematopoietic stem cells short term culture	blood
39	chr10:25199800-25202000	Enhancers	Monocytes-CD14+_RO01746	blood
40	chr10:25199800-25203000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
41	chr10:25200000-25201400	Enhancers	GM12878-XiMat	blood
42	chr10:25200000-25202200	Enhancers	Primary monocytes fromperipheralblood	blood
43	chr10:25200200-25201800	Enhancers	Primary T helper cells fromperipheralblood	blood
44	chr10:25200200-25201800	Enhancers	Lung	lung
45	chr10:25200200-25202000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
46	chr10:25200400-25201400	Weak transcription	NHDF-Ad	bronchial

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links