Variant report

Variant	rs9427287
Chromosome Location	chr1:153502286-153502287
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:153502286..153504111-chr1:153542207..153544551,2	MCF-7	breast:
2	chr1:153497834..153503028-chr1:153504169..153509062,7	MCF-7	breast:
3	chr1:153494693..153496489-chr1:153502079..153503790,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000238279	Chromatin interaction
ENSG00000197956	Chromatin interaction

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs16835393	0.87[EUR][1000 genomes]
rs17695220	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1887039	0.86[EUR][1000 genomes]
rs2094217	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2094737	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2094738	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2248745	0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2262587	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2339696	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2480695	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2480696	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs28410699	0.86[EUR][1000 genomes]
rs28464843	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs28483109	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3762262	0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4017737	0.92[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs4272569	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4430277	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs477339	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4845351	0.81[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4845352	0.97[EUR][1000 genomes]
rs4845554	0.87[EUR][1000 genomes]
rs4845555	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs532652	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs550597	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs552446	0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs585215	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6587743	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6587745	0.86[EUR][1000 genomes]
rs6587746	0.86[EUR][1000 genomes]
rs659403	0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6659755	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6684970	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6690638	0.86[EUR][1000 genomes]
rs6690712	0.86[EUR][1000 genomes]
rs7515940	0.86[EUR][1000 genomes]
rs7518306	0.99[EUR][1000 genomes]
rs7520093	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7534343	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7534347	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7534830	0.84[EUR][1000 genomes]
rs7537898	0.86[EUR][1000 genomes]
rs7544359	0.86[EUR][1000 genomes]
rs9426945	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9427239	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1010488	chr1:152901263-153670972	Genic enhancers Active TSS Strong transcription Bivalent/Poised TSS Weak transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	236 gene(s)	inside rSNPs	diseases
2	nsv535171	chr1:152901263-153670972	Enhancers Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer Strong transcription Active TSS 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 miRNA target site	236 gene(s)	inside rSNPs	diseases
3	nsv1002705	chr1:153307852-153525589	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	152 gene(s)	inside rSNPs	diseases
4	nsv831603	chr1:153405842-153576143	Transcr. at gene 5' and 3' Bivalent Enhancer Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	148 gene(s)	inside rSNPs	diseases
5	nsv1007306	chr1:153413827-153541798	Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	146 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:68 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:153481200-153503600	Weak transcription	Muscle Satellite Cultured Cells	--
2	chr1:153489000-153506000	Weak transcription	Gastric	stomach
3	chr1:153493600-153504000	Weak transcription	Colonic Mucosa	Colon
4	chr1:153495600-153504800	Weak transcription	Spleen	Spleen
5	chr1:153497200-153504600	Weak transcription	Stomach Smooth Muscle	stomach
6	chr1:153498000-153505800	Weak transcription	Aorta	Aorta
7	chr1:153498200-153505200	Weak transcription	Osteobl	bone
8	chr1:153498200-153506000	Weak transcription	Right Ventricle	heart
9	chr1:153498400-153504600	Weak transcription	HSMM	muscle
10	chr1:153498400-153504600	Weak transcription	NHDF-Ad	bronchial
11	chr1:153498400-153504800	Weak transcription	Placenta Amnion	Placenta Amnion
12	chr1:153498400-153505400	Weak transcription	HSMMtube	muscle
13	chr1:153498600-153504600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
14	chr1:153498800-153505200	Weak transcription	Fetal Muscle Trunk	muscle
15	chr1:153498800-153505200	Weak transcription	Right Atrium	heart
16	chr1:153499000-153503600	Weak transcription	HUVEC	blood vessel
17	chr1:153499000-153504200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr1:153499200-153504000	Weak transcription	Primary T cells fromperipheralblood	blood
19	chr1:153499200-153504600	Weak transcription	Colon Smooth Muscle	Colon
20	chr1:153499400-153504200	Weak transcription	Duodenum Mucosa	Duodenum
21	chr1:153499400-153504200	Weak transcription	Fetal Intestine Large	intestine
22	chr1:153499400-153504200	Weak transcription	Fetal Intestine Small	intestine
23	chr1:153499600-153504000	Weak transcription	Primary T cells from cord blood	blood
24	chr1:153499600-153504000	Weak transcription	Fetal Thymus	thymus
25	chr1:153499600-153504600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
26	chr1:153499600-153504800	Weak transcription	HUES48 Cell Line	embryonic stem cell
27	chr1:153499600-153504800	Weak transcription	Fetal Muscle Leg	muscle
28	chr1:153499600-153505000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
29	chr1:153499600-153505200	Weak transcription	Left Ventricle	heart
30	chr1:153499600-153505200	Weak transcription	Skeletal Muscle Male	skeletal muscle
31	chr1:153499600-153505400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr1:153499800-153504600	Weak transcription	HepG2	liver
33	chr1:153500000-153503600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
34	chr1:153500000-153504200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
35	chr1:153500000-153504200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
36	chr1:153500000-153504600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
37	chr1:153500000-153504800	Weak transcription	H1 Cell Line	embryonic stem cell
38	chr1:153500000-153504800	Weak transcription	HUES6 Cell Line	embryonic stem cell
39	chr1:153500000-153504800	Weak transcription	Placenta	Placenta
40	chr1:153500000-153504800	Weak transcription	NHLF	lung
41	chr1:153500000-153505000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
42	chr1:153500200-153504200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
43	chr1:153500200-153504200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
44	chr1:153500200-153504200	Weak transcription	Esophagus	oesophagus
45	chr1:153500200-153504600	Weak transcription	H9 Cell Line	embryonic stem cell
46	chr1:153500200-153504600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
47	chr1:153500200-153505200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
48	chr1:153500400-153503000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
49	chr1:153500400-153504000	Weak transcription	K562	blood
50	chr1:153500400-153504200	Weak transcription	Primary hematopoietic stem cells short term culture	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links