Variant report

Variant	rs2458930
Chromosome Location	chr11:36508775-36508776
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:36309513..36312180-chr11:36507629..36509613,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-TRAF6-2	chr11:36505323-36508995	NONHSAT018827

Variant related genes	Relation type
ENSG00000110442	Chromatin interaction

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs12421514	1.00[JPT][hapmap]
rs1515062	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16929126	1.00[JPT][hapmap]
rs16929138	1.00[JPT][hapmap]
rs2173394	1.00[EUR][1000 genomes]
rs230485	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2673017	1.00[EUR][1000 genomes]
rs2673018	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs331430	0.93[AFR][1000 genomes]
rs331431	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs331438	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs331449	1.00[TSI][hapmap];1.00[AMR][1000 genomes]
rs331451	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs331452	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs331456	1.00[TSI][hapmap]
rs331458	0.84[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs331461	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs331473	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs331475	1.00[AMR][1000 genomes]
rs34340782	1.00[EUR][1000 genomes]
rs34574486	1.00[EUR][1000 genomes]
rs34608958	1.00[EUR][1000 genomes]
rs4150997	1.00[JPT][hapmap]
rs4150998	1.00[JPT][hapmap]
rs4151016	1.00[JPT][hapmap]
rs4151019	1.00[JPT][hapmap]
rs4151032	1.00[JPT][hapmap]
rs4151041	1.00[JPT][hapmap]
rs4151046	1.00[JPT][hapmap]
rs4756327	1.00[TSI][hapmap]
rs496289	1.00[TSI][hapmap];0.84[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs505296	0.94[LWK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs510479	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs520074	0.88[LWK][hapmap];1.00[TSI][hapmap];0.84[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60287310	1.00[EUR][1000 genomes]
rs61475582	1.00[EUR][1000 genomes]
rs6484862	1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs692743	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs693068	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7109588	1.00[EUR][1000 genomes]
rs7125448	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7130097	1.00[JPT][hapmap]
rs869207	1.00[JPT][hapmap]
rs871912	1.00[JPT][hapmap]
rs962353	1.00[TSI][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv467791	chr11:36108497-36999385	Flanking Active TSS Weak transcription Strong transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	nsv554003	chr11:36108497-36999385	ZNF genes & repeats Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:36474800-36511000	Weak transcription	Fetal Kidney	kidney
2	chr11:36478200-36508800	Weak transcription	Fetal Brain Female	brain
3	chr11:36478800-36510400	Weak transcription	Right Ventricle	heart
4	chr11:36478800-36512200	Weak transcription	Colon Smooth Muscle	Colon
5	chr11:36489200-36510600	Weak transcription	Colonic Mucosa	Colon
6	chr11:36490000-36530400	Weak transcription	Esophagus	oesophagus
7	chr11:36491000-36511200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr11:36499000-36509000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
9	chr11:36499200-36512800	Weak transcription	Fetal Lung	lung
10	chr11:36500800-36509600	Weak transcription	Brain Angular Gyrus	brain
11	chr11:36500800-36522400	Weak transcription	Pancreatic Islets	Pancreatic Islet
12	chr11:36502200-36523400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
13	chr11:36502600-36509200	Weak transcription	HUES48 Cell Line	embryonic stem cell
14	chr11:36503400-36509000	Weak transcription	GM12878-XiMat	blood
15	chr11:36503600-36510200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
16	chr11:36504400-36510600	Weak transcription	K562	blood
17	chr11:36504400-36511000	Weak transcription	Hela-S3	cervix
18	chr11:36504400-36524000	Weak transcription	Stomach Mucosa	stomach
19	chr11:36504800-36508800	Strong transcription	Muscle Satellite Cultured Cells	--
20	chr11:36504800-36508800	Strong transcription	Monocytes-CD14+_RO01746	blood
21	chr11:36504800-36508800	Strong transcription	NH-A	brain
22	chr11:36504800-36509600	Strong transcription	Fetal Thymus	thymus
23	chr11:36504800-36514000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
24	chr11:36504800-36517400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
25	chr11:36504800-36517600	Strong transcription	Fetal Muscle Leg	muscle
26	chr11:36504800-36521200	Strong transcription	Fetal Intestine Large	intestine
27	chr11:36504800-36521600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
28	chr11:36504800-36521800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
29	chr11:36504800-36522800	Strong transcription	Liver	Liver
30	chr11:36504800-36523000	Strong transcription	Fetal Muscle Trunk	muscle
31	chr11:36505000-36508800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
32	chr11:36505000-36509000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
33	chr11:36505000-36509000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
34	chr11:36505000-36510000	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
35	chr11:36505000-36510200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
36	chr11:36505000-36512200	Strong transcription	Fetal Intestine Small	intestine
37	chr11:36505200-36510000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
38	chr11:36505200-36511200	Weak transcription	H9 Cell Line	embryonic stem cell
39	chr11:36505200-36513200	Weak transcription	Fetal Heart	heart
40	chr11:36505200-36516400	Strong transcription	Cortex derived primary cultured neurospheres	brain
41	chr11:36505200-36521600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
42	chr11:36505400-36508800	Strong transcription	Primary T helper cells fromperipheralblood	blood
43	chr11:36505400-36509000	Strong transcription	HSMM	muscle
44	chr11:36505400-36509200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
45	chr11:36505400-36509400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
46	chr11:36505400-36509600	Strong transcription	Primary T cells from cord blood	blood
47	chr11:36505400-36520800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
48	chr11:36505400-36521600	Strong transcription	Duodenum Mucosa	Duodenum
49	chr11:36505400-36523200	Strong transcription	Primary neutrophils fromperipheralblood	blood
50	chr11:36505600-36509000	Strong transcription	Primary T cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links