Variant report

Variant	rs60620665
Chromosome Location	chr3:150866794-150866795
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:150865647..150868615-chr3:150871045..150873818,2	K562	blood:

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs12106682	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12631155	1.00[EUR][1000 genomes]
rs16863173	0.83[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs16863204	0.87[AFR][1000 genomes]
rs16863219	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16863227	0.87[AFR][1000 genomes]
rs16863248	1.00[EUR][1000 genomes]
rs16863250	1.00[EUR][1000 genomes]
rs2870415	1.00[EUR][1000 genomes]
rs3821666	1.00[EUR][1000 genomes]
rs3960212	1.00[EUR][1000 genomes]
rs41526246	0.89[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs41526349	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58321514	1.00[EUR][1000 genomes]
rs60816259	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs60966250	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6440723	1.00[EUR][1000 genomes]
rs6440725	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6767615	1.00[EUR][1000 genomes]
rs6774659	1.00[EUR][1000 genomes]
rs6776934	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6777211	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6787551	1.00[EUR][1000 genomes]
rs6790244	1.00[EUR][1000 genomes]
rs6790349	1.00[EUR][1000 genomes]
rs6794447	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73009177	1.00[EUR][1000 genomes]
rs73012977	1.00[EUR][1000 genomes]
rs73012978	1.00[EUR][1000 genomes]
rs73012986	1.00[EUR][1000 genomes]
rs73012988	1.00[EUR][1000 genomes]
rs73012992	1.00[EUR][1000 genomes]
rs73013000	1.00[EUR][1000 genomes]
rs73014806	0.83[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73014871	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73014873	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73016712	0.97[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73016789	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73018620	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73019093	0.89[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73019099	0.93[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73021108	0.89[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73021116	1.00[EUR][1000 genomes]
rs73021129	1.00[EUR][1000 genomes]
rs73021144	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs7618087	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7638986	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7653225	0.83[AFR][1000 genomes];1.00[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	nsv829756	chr3:150692636-150889738	Weak transcription Enhancers Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv460894	chr3:150770614-151095093	Enhancers Flanking Bivalent TSS/Enh Weak transcription Strong transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv592045	chr3:150770614-151095093	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
4	esv2757897	chr3:150791625-150957485	ZNF genes & repeats Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	esv2759188	chr3:150791625-150957485	Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	nsv877648	chr3:150792444-150895145	Enhancers Weak transcription Active TSS Genic enhancers Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:150827400-150873000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr3:150861400-150872600	Weak transcription	Cortex derived primary cultured neurospheres	brain
3	chr3:150861800-150872600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
4	chr3:150862000-150872200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr3:150862800-150873000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr3:150862800-150873600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr3:150863200-150889000	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr3:150863800-150873000	Weak transcription	Fetal Brain Male	brain
9	chr3:150864200-150867200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr3:150864200-150872800	Weak transcription	HUES64 Cell Line	embryonic stem cell
11	chr3:150864200-150874400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
12	chr3:150864400-150871600	Weak transcription	Primary B cells from cord blood	blood
13	chr3:150864400-150873000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
14	chr3:150864600-150868200	Weak transcription	Duodenum Mucosa	Duodenum
15	chr3:150864600-150873800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
16	chr3:150864800-150867000	Weak transcription	Primary neutrophils fromperipheralblood	blood
17	chr3:150864800-150868000	Weak transcription	Fetal Intestine Large	intestine
18	chr3:150864800-150868400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
19	chr3:150864800-150870000	Weak transcription	Primary hematopoietic stem cells	blood
20	chr3:150864800-150872600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
21	chr3:150864800-150873200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr3:150865000-150866800	Weak transcription	Fetal Intestine Small	intestine
23	chr3:150865000-150886400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
24	chr3:150865400-150867200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr3:150865600-150867600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links