Variant report

Variant	rs2076058
Chromosome Location	chr6:15507880-15507881
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:15244984..15247344-chr6:15506615..15509940,3	K562	blood:
2	chr6:15489579..15491671-chr6:15507006..15508555,2	MCF-7	breast:
3	chr6:15503488..15507338-chr6:15507850..15510659,7	K562	blood:
4	chr6:15210560..15212912-chr6:15507316..15509644,2	K562	blood:
5	chr6:15247335..15250769-chr6:15507834..15511704,4	K562	blood:
6	chr6:15507513..15510488-chr6:15519639..15522000,2	MCF-7	breast:
7	chr6:15496453..15502686-chr6:15502830..15509631,7	K562	blood:
8	chr6:15500030..15502073-chr6:15506681..15509631,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000008083	Chromatin interaction
ENSG00000271888	Chromatin interaction
ENSG00000235488	Chromatin interaction

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

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

rs_ID	r²[population]
rs16876554	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16876555	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2064099	0.85[CEU][hapmap]
rs2237110	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs3778651	0.82[CEU][hapmap];0.88[CHB][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7756497	0.87[CEU][hapmap]
rs9296975	0.82[CEU][hapmap];0.81[EUR][1000 genomes]
rs9464792	0.85[CEU][hapmap];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9654600	0.88[CHB][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[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	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
3	nsv522265	chr6:15494177-15546213	ZNF genes & repeats Weak transcription Genic enhancers Strong transcription Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
4	nsv970297	chr6:15507861-15511435	Strong transcription Enhancers Weak transcription Genic enhancers Transcr. at gene 5' and 3'	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:15487200-15508000	Strong transcription	Monocytes-CD14+_RO01746	blood
2	chr6:15492200-15508200	Strong transcription	Primary monocytes fromperipheralblood	blood
3	chr6:15492200-15527000	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
4	chr6:15492400-15527200	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
5	chr6:15492600-15522200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
6	chr6:15492800-15515000	Strong transcription	Thymus	Thymus
7	chr6:15492800-15527000	Strong transcription	Primary T helper cells PMA-I stimulated	--
8	chr6:15493800-15520000	Weak transcription	Hela-S3	cervix
9	chr6:15494200-15522400	Strong transcription	Primary T cells fromperipheralblood	blood
10	chr6:15494800-15524000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr6:15494800-15527000	Strong transcription	Primary B cells from peripheral blood	blood
12	chr6:15495000-15527200	Strong transcription	Dnd41	blood
13	chr6:15495000-15529200	Strong transcription	Primary T cells from cord blood	blood
14	chr6:15495200-15508400	Strong transcription	iPS-18 Cell Line	embryonic stem cell
15	chr6:15495200-15525800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
16	chr6:15495400-15508600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
17	chr6:15495400-15525000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
18	chr6:15496000-15525200	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
19	chr6:15496000-15525600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr6:15496000-15526600	Strong transcription	Primary T helper cells fromperipheralblood	blood
21	chr6:15496000-15528400	Strong transcription	Primary B cells from cord blood	blood
22	chr6:15496200-15508200	Strong transcription	Primary neutrophils fromperipheralblood	blood
23	chr6:15496600-15517000	Weak transcription	Small Intestine	intestine
24	chr6:15497400-15526600	Strong transcription	Fetal Intestine Large	intestine
25	chr6:15498400-15522600	Strong transcription	Primary hematopoietic stem cells	blood
26	chr6:15500600-15524600	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
27	chr6:15501800-15508400	Enhancers	Left Ventricle	heart
28	chr6:15502400-15509400	Weak transcription	Placenta Amnion	Placenta Amnion
29	chr6:15502400-15522400	Weak transcription	A549	lung
30	chr6:15502800-15521400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
31	chr6:15503600-15508600	Genic enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
32	chr6:15505200-15521600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
33	chr6:15505400-15508200	Strong transcription	Primary T helper naive cells from peripheral blood	blood
34	chr6:15505400-15509200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
35	chr6:15505600-15515000	Genic enhancers	Right Ventricle	heart
36	chr6:15505800-15508200	Weak transcription	Fetal Brain Female	brain
37	chr6:15505800-15508800	Genic enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
38	chr6:15505800-15509200	Genic enhancers	ES-UCSF4 Cell Line	embryonic stem cell
39	chr6:15505800-15510000	Genic enhancers	H1 Cell Line	embryonic stem cell
40	chr6:15505800-15510800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
41	chr6:15505800-15518800	Strong transcription	Colonic Mucosa	Colon
42	chr6:15506000-15508600	Weak transcription	NH-A	brain
43	chr6:15506000-15509200	Genic enhancers	HUES48 Cell Line	embryonic stem cell
44	chr6:15506000-15509200	Strong transcription	Sigmoid Colon	Sigmoid Colon
45	chr6:15506000-15513800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
46	chr6:15506000-15514600	Weak transcription	NHDF-Ad	bronchial
47	chr6:15506000-15522000	Weak transcription	Stomach Mucosa	stomach
48	chr6:15506000-15523600	Strong transcription	NHEK	skin
49	chr6:15506000-15527000	Strong transcription	Fetal Intestine Small	intestine
50	chr6:15506200-15508000	Weak transcription	Ovary	ovary

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links