Variant report

Variant	rs17605814
Chromosome Location	chr16:75338592-75338593
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr16:75298469..75301995-chr16:75337781..75340827,6	MCF-7	breast:
2	chr16:75282402..75286042-chr16:75337577..75341093,9	MCF-7	breast:
3	chr16:75288586..75292639-chr16:75337750..75340619,6	MCF-7	breast:
4	chr16:75282912..75287259-chr16:75337955..75341068,4	MCF-7	breast:
5	chr16:75332346..75334763-chr16:75336169..75339103,3	MCF-7	breast:
6	chr16:75338370..75340171-chr16:75414434..75416006,2	MCF-7	breast:
7	chr16:75298649..75302173-chr16:75337597..75342572,10	MCF-7	breast:

Variant related genes	Relation type
ENSG00000050820	Chromatin interaction
ENSG00000261783	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs17605723	1.00[CEU][hapmap];1.00[YRI][hapmap];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs17606084	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs17674257	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs187435	0.87[EUR][1000 genomes]
rs2454860	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs247429	0.87[EUR][1000 genomes]
rs247441	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs37590	0.81[CEU][hapmap];0.84[EUR][1000 genomes]
rs391192	0.90[EUR][1000 genomes]
rs4243113	0.90[EUR][1000 genomes]
rs469176	0.87[EUR][1000 genomes]
rs58518445	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6564246	0.97[EUR][1000 genomes]
rs66885758	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs66886787	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs67836283	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7185976	0.90[EUR][1000 genomes]
rs7192448	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7193299	0.90[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs7199718	0.88[CEU][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7202997	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs72787117	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs72787126	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs72787129	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs72787135	0.90[EUR][1000 genomes]
rs72787147	0.90[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs72787159	0.90[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs72787163	0.90[AFR][1000 genomes];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs72787169	0.84[EUR][1000 genomes]
rs72804118	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72804120	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs72804135	0.99[EUR][1000 genomes]
rs72804140	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72804141	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72804154	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72804155	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72804160	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72804161	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs72804162	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs8044442	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs8055093	0.90[AFR][1000 genomes];0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1061095	chr16:74519718-75407020	Strong transcription Enhancers Flanking Active TSS Weak transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	123 gene(s)	inside rSNPs	diseases
2	nsv532560	chr16:74692406-75411912	Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	111 gene(s)	inside rSNPs	diseases
3	nsv916502	chr16:74845880-75732365	Enhancers Weak transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	131 gene(s)	inside rSNPs	diseases
4	nsv523405	chr16:75227969-75342846	Transcr. at gene 5' and 3' Strong transcription Enhancers Flanking Active TSS Weak transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
5	nsv931939	chr16:75261354-75765025	Weak transcription Bivalent/Poised TSS Strong transcription Enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	104 gene(s)	inside rSNPs	diseases
6	nsv833283	chr16:75302175-75392308	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 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	chr16:75317400-75358000	Weak transcription	Fetal Brain Male	brain
2	chr16:75320800-75339000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
3	chr16:75323600-75339000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
4	chr16:75323600-75339000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
5	chr16:75323600-75339200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
6	chr16:75323800-75339000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
7	chr16:75324000-75338800	Strong transcription	Primary T helper cells fromperipheralblood	blood
8	chr16:75324800-75340200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
9	chr16:75325000-75339600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
10	chr16:75325200-75338800	Strong transcription	Primary T cells from cord blood	blood
11	chr16:75325200-75340800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
12	chr16:75326200-75338800	Strong transcription	Primary T helper cells PMA-I stimulated	--
13	chr16:75326200-75339000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
14	chr16:75327000-75339200	Weak transcription	Fetal Kidney	kidney
15	chr16:75327400-75339200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
16	chr16:75328600-75339400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
17	chr16:75329000-75340400	Strong transcription	Thymus	Thymus
18	chr16:75329200-75339200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr16:75329600-75339000	Strong transcription	Primary T cells fromperipheralblood	blood
20	chr16:75330200-75338600	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
21	chr16:75330400-75338800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr16:75330800-75338800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
23	chr16:75331200-75339000	Strong transcription	HUES64 Cell Line	embryonic stem cell
24	chr16:75331400-75338800	Strong transcription	Primary B cells from peripheral blood	blood
25	chr16:75332000-75339800	Strong transcription	iPS-18 Cell Line	embryonic stem cell
26	chr16:75332200-75338600	Strong transcription	HUES6 Cell Line	embryonic stem cell
27	chr16:75332200-75338800	Strong transcription	H9 Cell Line	embryonic stem cell
28	chr16:75332200-75339400	Strong transcription	H1 Cell Line	embryonic stem cell
29	chr16:75332600-75338600	Weak transcription	Small Intestine	intestine
30	chr16:75332600-75339400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
31	chr16:75332600-75352000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
32	chr16:75333000-75339800	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
33	chr16:75333400-75339600	Strong transcription	Primary B cells from cord blood	blood
34	chr16:75333600-75338600	Strong transcription	ES-I3 Cell Line	embryonic stem cell
35	chr16:75333600-75338800	Strong transcription	Fetal Brain Female	brain
36	chr16:75334000-75338800	Weak transcription	Colonic Mucosa	Colon
37	chr16:75334600-75338600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
38	chr16:75334600-75338800	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
39	chr16:75334600-75339000	Strong transcription	HUES48 Cell Line	embryonic stem cell
40	chr16:75334600-75339000	Strong transcription	Primary hematopoietic stem cells	blood
41	chr16:75335000-75346400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
42	chr16:75335200-75338800	Strong transcription	Primary T killer naive cells fromperipheralblood	blood
43	chr16:75336000-75346600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
44	chr16:75336400-75338600	Genic enhancers	Breast Myoepithelial Primary Cells	Breast
45	chr16:75336600-75343000	Weak transcription	Gastric	stomach
46	chr16:75336800-75338600	Weak transcription	Lung	lung
47	chr16:75336800-75340200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
48	chr16:75336800-75346600	Weak transcription	Ovary	ovary
49	chr16:75337200-75338800	Strong transcription	Primary neutrophils fromperipheralblood	blood
50	chr16:75337200-75339000	Strong transcription	Spleen	Spleen

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links