Variant report

Variant	rs16958579
Chromosome Location	chr18:45402778-45402779
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr18:45401120..45404562-chr18:45404621..45407593,3	K562	blood:
2	chr18:45396878..45399642-chr18:45401844..45403752,2	MCF-7	breast:
3	chr18:45400689..45404562-chr18:45404621..45407103,3	K562	blood:
4	chr18:45402129..45404983-chr18:45456603..45459042,2	MCF-7	breast:
5	chr18:45393055..45395642-chr18:45402481..45404020,2	MCF-7	breast:
6	chr18:45402056..45405449-chr18:45544846..45548415,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000175387	Chromatin interaction

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10502889	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16958509	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes]
rs16958575	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16958590	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs16958602	1.00[CEU][hapmap];0.81[JPT][hapmap];0.96[AMR][1000 genomes]
rs16958610	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16958629	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3813069	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4939632	0.83[AFR][1000 genomes]
rs4939676	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4939972	0.83[AFR][1000 genomes]
rs57631119	0.98[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs58060476	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs58137461	0.83[AFR][1000 genomes]
rs58573997	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs58825872	0.95[AMR][1000 genomes]
rs8085335	0.94[CHB][hapmap];0.93[JPT][hapmap]
rs8086227	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes]
rs8098413	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs9304357	1.00[CEU][hapmap];0.84[CHB][hapmap];1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:23 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1058673	chr18:45360012-45404492	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
2	nsv1059186	chr18:45360012-45407405	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
3	nsv1057525	chr18:45368587-45407405	ZNF genes & repeats Strong transcription Weak transcription Enhancers Genic enhancers	TF binding region Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
4	nsv1064282	chr18:45369857-45404768	Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Enhancers	TF binding region Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
5	nsv1063859	chr18:45372027-45404492	Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Enhancers	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv1057298	chr18:45374239-45404428	ZNF genes & repeats Weak transcription Strong transcription Enhancers Genic enhancers	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
7	nsv1062731	chr18:45374239-45404768	Genic enhancers Weak transcription Strong transcription Enhancers ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
8	nsv1065607	chr18:45374658-45404751	Enhancers Strong transcription Weak transcription ZNF genes & repeats Genic enhancers	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
9	nsv1066646	chr18:45384301-45406242	ZNF genes & repeats Weak transcription Enhancers Strong transcription Genic enhancers	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
10	nsv1057028	chr18:45384301-45410482	Enhancers Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
11	nsv1063791	chr18:45387616-45404428	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
12	nsv1059120	chr18:45387616-45404768	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
13	nsv1062089	chr18:45387616-45407754	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
14	nsv1064124	chr18:45387616-45410760	Strong transcription Weak transcription Genic enhancers Enhancers ZNF genes & repeats Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
15	nsv1057124	chr18:45387723-45404428	Strong transcription Enhancers Weak transcription ZNF genes & repeats Genic enhancers	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
16	nsv1064655	chr18:45387723-45406182	Weak transcription Strong transcription Genic enhancers Enhancers ZNF genes & repeats	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
17	nsv1067147	chr18:45388621-45404768	Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
18	nsv1065234	chr18:45389554-45407966	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
19	nsv1057307	chr18:45394077-45404768	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
20	nsv1067255	chr18:45394077-45407181	Enhancers Weak transcription Genic enhancers Strong transcription ZNF genes & repeats	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
21	nsv1057072	chr18:45395377-45410041	Enhancers Strong transcription Weak transcription ZNF genes & repeats Genic enhancers Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
22	nsv1064892	chr18:45397130-45407820	Enhancers Genic enhancers Strong transcription Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
23	nsv960228	chr18:45401994-45411054	Strong transcription Weak transcription Genic enhancers Enhancers Flanking Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:118 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:45366600-45408200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr18:45382200-45420400	Weak transcription	Right Ventricle	heart
3	chr18:45384200-45421200	Weak transcription	Gastric	stomach
4	chr18:45384200-45423000	Weak transcription	Lung	lung
5	chr18:45384400-45410200	Weak transcription	Aorta	Aorta
6	chr18:45384400-45419600	Weak transcription	K562	blood
7	chr18:45384400-45423000	Weak transcription	Spleen	Spleen
8	chr18:45384800-45407000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
9	chr18:45384800-45418400	Weak transcription	Fetal Brain Male	brain
10	chr18:45385600-45420800	Weak transcription	Brain Germinal Matrix	brain
11	chr18:45386800-45420400	Weak transcription	H9 Cell Line	embryonic stem cell
12	chr18:45386800-45420600	Weak transcription	Esophagus	oesophagus
13	chr18:45387000-45407200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr18:45387000-45407200	Weak transcription	Fetal Muscle Leg	muscle
15	chr18:45387000-45408200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr18:45387000-45408400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr18:45387600-45408200	Weak transcription	Fetal Stomach	stomach
18	chr18:45389000-45410200	Weak transcription	Psoas Muscle	Psoas
19	chr18:45390000-45413600	Weak transcription	Fetal Heart	heart
20	chr18:45390400-45408200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
21	chr18:45390400-45408400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
22	chr18:45390400-45410000	Weak transcription	Skeletal Muscle Female	skeletal muscle
23	chr18:45390600-45410400	Weak transcription	Rectal Smooth Muscle	rectum
24	chr18:45390600-45419600	Weak transcription	Placenta Amnion	Placenta Amnion
25	chr18:45391000-45418400	Weak transcription	HUVEC	blood vessel
26	chr18:45391200-45416400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
27	chr18:45391400-45406600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
28	chr18:45391800-45405200	Weak transcription	Primary hematopoietic stem cells	blood
29	chr18:45394000-45406200	Weak transcription	Fetal Intestine Large	intestine
30	chr18:45394600-45414000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
31	chr18:45394800-45407800	Weak transcription	Osteobl	bone
32	chr18:45395000-45407000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
33	chr18:45395200-45407000	Weak transcription	H1 Cell Line	embryonic stem cell
34	chr18:45395400-45407000	Weak transcription	NH-A	brain
35	chr18:45395400-45407000	Weak transcription	NHDF-Ad	bronchial
36	chr18:45395400-45408000	Weak transcription	Duodenum Mucosa	Duodenum
37	chr18:45395400-45420800	Weak transcription	Fetal Brain Female	brain
38	chr18:45395600-45406600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
39	chr18:45395800-45405000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
40	chr18:45395800-45407000	Weak transcription	HUES6 Cell Line	embryonic stem cell
41	chr18:45395800-45407000	Weak transcription	Primary T cells fromperipheralblood	blood
42	chr18:45395800-45407000	Weak transcription	Fetal Kidney	kidney
43	chr18:45395800-45407000	Weak transcription	Rectal Mucosa Donor 29	rectum
44	chr18:45395800-45407000	Weak transcription	HSMM	muscle
45	chr18:45395800-45407200	Weak transcription	Primary neutrophils fromperipheralblood	blood
46	chr18:45395800-45407600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
47	chr18:45396000-45406800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
48	chr18:45396000-45406800	Weak transcription	Placenta	Placenta
49	chr18:45396000-45406800	Weak transcription	Fetal Thymus	thymus
50	chr18:45396000-45407000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links