Variant report

Variant	rs2076055
Chromosome Location	chr6:15488124-15488125
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	chr6:15474184..15476635-chr6:15488076..15490844,2	K562	blood:
2	chr6:15243868..15248249-chr6:15486712..15491085,4	K562	blood:

Variant related genes	Relation type
ENSG00000271888	Chromatin interaction
ENSG00000008083	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs1474588	0.96[CEU][hapmap];0.83[EUR][1000 genomes]
rs2237113	0.95[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs2237117	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2237118	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2237119	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs2237121	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2237123	0.95[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs2237124	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2237141	0.96[CEU][hapmap];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2237145	0.96[CEU][hapmap];0.85[EUR][1000 genomes]
rs2237156	0.80[CEU][hapmap]
rs2282821	0.91[CHB][hapmap];0.91[JPT][hapmap];0.88[ASN][1000 genomes]
rs2299045	0.96[CEU][hapmap];0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2299048	0.92[CEU][hapmap];0.81[EUR][1000 genomes]
rs2299054	0.80[CEU][hapmap]
rs3778652	0.96[CEU][hapmap];0.82[EUR][1000 genomes]
rs4085876	0.96[CEU][hapmap];0.85[EUR][1000 genomes]
rs6459406	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7754701	0.96[CEU][hapmap];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7754755	0.84[EUR][1000 genomes]
rs9349979	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9370817	1.00[CEU][hapmap];0.92[JPT][hapmap];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9370819	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9383061	0.92[AMR][1000 genomes];0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9476827	0.96[CEU][hapmap];0.82[EUR][1000 genomes]

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	nsv538140	chr6:15217899-15547127	Enhancers Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
2	nsv538141	chr6:15234675-15509163	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	28 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	chr6:15461600-15491000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr6:15471000-15488200	Weak transcription	Rectal Mucosa Donor 31	rectum
3	chr6:15471000-15502000	Weak transcription	A549	lung
4	chr6:15471400-15488200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
5	chr6:15480400-15488200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
6	chr6:15480400-15490600	Weak transcription	NHDF-Ad	bronchial
7	chr6:15480600-15488400	Weak transcription	NH-A	brain
8	chr6:15480800-15488200	Weak transcription	Muscle Satellite Cultured Cells	--
9	chr6:15481200-15491800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
10	chr6:15481400-15488400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
11	chr6:15482000-15488400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
12	chr6:15482200-15491400	Weak transcription	Fetal Brain Male	brain
13	chr6:15482400-15488400	Weak transcription	HSMM	muscle
14	chr6:15482400-15491400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
15	chr6:15483200-15490800	Weak transcription	HSMMtube	muscle
16	chr6:15483200-15491400	Weak transcription	Fetal Heart	heart
17	chr6:15484800-15488800	Weak transcription	Small Intestine	intestine
18	chr6:15484800-15488800	Weak transcription	Stomach Mucosa	stomach
19	chr6:15484800-15496400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr6:15485800-15488200	Weak transcription	Pancreatic Islets	Pancreatic Islet
21	chr6:15486000-15489800	Strong transcription	Primary B cells from peripheral blood	blood
22	chr6:15486200-15488200	Weak transcription	Fetal Kidney	kidney
23	chr6:15486200-15489000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
24	chr6:15486200-15489000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr6:15486200-15489600	Strong transcription	Primary T cells from cord blood	blood
26	chr6:15486200-15491000	Strong transcription	Primary B cells from cord blood	blood
27	chr6:15486200-15491400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
28	chr6:15486400-15488200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
29	chr6:15486400-15489000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
30	chr6:15486400-15489400	Strong transcription	Fetal Thymus	thymus
31	chr6:15486400-15490200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr6:15486400-15491600	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
33	chr6:15486600-15488800	Strong transcription	HUES6 Cell Line	embryonic stem cell
34	chr6:15486600-15489800	Strong transcription	GM12878-XiMat	blood
35	chr6:15486600-15490000	Strong transcription	HUES64 Cell Line	embryonic stem cell
36	chr6:15486600-15490000	Strong transcription	iPS-15b Cell Line	embryonic stem cell
37	chr6:15486600-15490200	Strong transcription	Dnd41	blood
38	chr6:15486600-15491400	Weak transcription	Right Atrium	heart
39	chr6:15486800-15488200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
40	chr6:15486800-15489400	Strong transcription	H9 Cell Line	embryonic stem cell
41	chr6:15486800-15489400	Strong transcription	Primary T helper cells PMA-I stimulated	--
42	chr6:15486800-15490000	Strong transcription	K562	blood
43	chr6:15486800-15490800	Weak transcription	Psoas Muscle	Psoas
44	chr6:15486800-15502000	Weak transcription	Placenta Amnion	Placenta Amnion
45	chr6:15487000-15488400	Strong transcription	H1 Cell Line	embryonic stem cell
46	chr6:15487000-15488400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
47	chr6:15487000-15488800	Strong transcription	ES-I3 Cell Line	embryonic stem cell
48	chr6:15487000-15489600	Strong transcription	Thymus	Thymus
49	chr6:15487000-15489800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
50	chr6:15487000-15490000	Strong transcription	Primary T helper cells fromperipheralblood	blood

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