Variant report

Variant	rs9806629
Chromosome Location	chr15:43397104-43397105
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:43396979..43399675-chr15:43425245..43427228,2	MCF-7	breast:
2	chr15:43390055..43391666-chr15:43396242..43397765,2	MCF-7	breast:
3	chr15:43380437..43382771-chr15:43396547..43398200,2	K562	blood:
4	chr15:43395932..43399418-chr15:43425897..43428585,4	K562	blood:

Variant related genes	Relation type
ENSG00000137842	Chromatin interaction

Extended variants
information (count: 65 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs10048057	1.00[EUR][1000 genomes]
rs10083725	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs10152237	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs10220812	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs1042168	1.00[EUR][1000 genomes]
rs10438267	1.00[EUR][1000 genomes]
rs1078243	1.00[EUR][1000 genomes]
rs11504654	1.00[EUR][1000 genomes]
rs11504655	1.00[EUR][1000 genomes]
rs12324094	0.96[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs12324436	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs12324573	1.00[EUR][1000 genomes]
rs1474199	1.00[EUR][1000 genomes]
rs1520519	1.00[EUR][1000 genomes]
rs16957409	1.00[EUR][1000 genomes]
rs16957462	1.00[EUR][1000 genomes]
rs16957499	1.00[EUR][1000 genomes]
rs16957502	1.00[EUR][1000 genomes]
rs16957507	1.00[EUR][1000 genomes]
rs1863601	1.00[EUR][1000 genomes]
rs2271964	1.00[EUR][1000 genomes]
rs2271965	1.00[EUR][1000 genomes]
rs28444219	1.00[EUR][1000 genomes]
rs28539201	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs3177296	1.00[EUR][1000 genomes]
rs34222269	1.00[EUR][1000 genomes]
rs505276	1.00[EUR][1000 genomes]
rs58059509	1.00[EUR][1000 genomes]
rs59401274	1.00[EUR][1000 genomes]
rs59900401	1.00[EUR][1000 genomes]
rs60435696	1.00[EUR][1000 genomes]
rs60481556	1.00[EUR][1000 genomes]
rs61268760	1.00[EUR][1000 genomes]
rs61343376	1.00[EUR][1000 genomes]
rs61711558	1.00[EUR][1000 genomes]
rs7162620	1.00[EUR][1000 genomes]
rs7162971	1.00[EUR][1000 genomes]
rs7171797	1.00[EUR][1000 genomes]
rs7176183	1.00[EUR][1000 genomes]
rs7182685	1.00[EUR][1000 genomes]
rs7183024	1.00[EUR][1000 genomes]
rs8030850	1.00[EUR][1000 genomes]
rs8035881	1.00[EUR][1000 genomes]
rs8039342	1.00[EUR][1000 genomes]
rs8040769	1.00[EUR][1000 genomes]
rs8040960	1.00[EUR][1000 genomes]
rs8041312	1.00[EUR][1000 genomes]
rs9806236	1.00[EUR][1000 genomes]
rs9972314	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:16 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv525461	chr15:43062548-43482127	Enhancers Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases
2	nsv1044522	chr15:43115348-43658417	Strong transcription Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Enhancers Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
3	nsv515876	chr15:43116906-43445305	Strong transcription Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
4	nsv569240	chr15:43201109-43445305	Weak transcription Strong transcription Bivalent/Poised TSS Flanking Active TSS Enhancers Genic enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
5	nsv569241	chr15:43201109-43522922	Active TSS Weak transcription ZNF genes & repeats Strong transcription Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
6	nsv569242	chr15:43210030-43445305	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
7	nsv904136	chr15:43257475-43482127	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
8	nsv904138	chr15:43268970-43414673	Strong transcription Enhancers Genic enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
9	nsv904139	chr15:43268970-43482127	Weak transcription Strong transcription Active TSS Flanking Active TSS Genic enhancers Enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
10	nsv1044508	chr15:43270637-43658417	Weak transcription Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Active TSS Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
11	nsv904142	chr15:43276345-43403955	Strong transcription Active TSS Enhancers Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
12	nsv904143	chr15:43276345-43414673	Strong transcription ZNF genes & repeats Weak transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
13	nsv904144	chr15:43276345-43482127	Bivalent/Poised TSS Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
14	nsv904146	chr15:43294218-43414673	Weak transcription Strong transcription Active TSS Flanking Active TSS Enhancers ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
15	nsv904147	chr15:43309429-43403955	Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
16	esv1802035	chr15:43370916-43487742	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:43269200-43397200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr15:43303400-43397400	Weak transcription	Esophagus	oesophagus
3	chr15:43348400-43397400	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr15:43353000-43397400	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr15:43373200-43397200	Weak transcription	Fetal Brain Male	brain
6	chr15:43376600-43397200	Weak transcription	H1 Cell Line	embryonic stem cell
7	chr15:43377600-43397200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
8	chr15:43377600-43397200	Weak transcription	Colonic Mucosa	Colon
9	chr15:43385800-43397400	Weak transcription	Lung	lung
10	chr15:43386000-43397400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr15:43386000-43397400	Weak transcription	Aorta	Aorta
12	chr15:43386000-43397400	Weak transcription	Ovary	ovary
13	chr15:43388800-43397600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr15:43390000-43397600	Weak transcription	Spleen	Spleen
15	chr15:43391000-43397200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
16	chr15:43393400-43397200	Enhancers	Skeletal Muscle Male	skeletal muscle
17	chr15:43393400-43397200	Enhancers	Skeletal Muscle Female	skeletal muscle
18	chr15:43393400-43397400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
19	chr15:43393400-43397400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
20	chr15:43393600-43397400	Weak transcription	Gastric	stomach
21	chr15:43394000-43397400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
22	chr15:43394200-43397400	Enhancers	Primary T helper naive cells from peripheral blood	blood
23	chr15:43394400-43397200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
24	chr15:43394400-43397400	Enhancers	Primary T killer memory cells from peripheral blood	blood
25	chr15:43395400-43397200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
26	chr15:43395400-43397400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
27	chr15:43395400-43397600	Enhancers	Small Intestine	intestine
28	chr15:43395600-43397200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
29	chr15:43395600-43397200	Enhancers	Primary neutrophils fromperipheralblood	blood
30	chr15:43395600-43397200	Weak transcription	Fetal Stomach	stomach
31	chr15:43395600-43397400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
32	chr15:43395600-43397400	Enhancers	Colon Smooth Muscle	Colon
33	chr15:43395800-43397200	Enhancers	Primary T helper cells fromperipheralblood	blood
34	chr15:43395800-43397200	Enhancers	Liver	Liver
35	chr15:43395800-43397200	Enhancers	Fetal Intestine Small	intestine
36	chr15:43396000-43397400	Enhancers	Fetal Heart	heart
37	chr15:43396000-43397400	Enhancers	Stomach Mucosa	stomach
38	chr15:43396200-43397200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
39	chr15:43396200-43397400	Enhancers	Primary B cells from peripheral blood	blood
40	chr15:43396200-43399000	Active TSS	Right Atrium	heart
41	chr15:43396400-43397200	Enhancers	Adipose Nuclei	Adipose
42	chr15:43396400-43397200	Enhancers	Fetal Kidney	kidney
43	chr15:43396400-43397200	Flanking Active TSS	NHEK	skin
44	chr15:43396400-43397400	Enhancers	Primary monocytes fromperipheralblood	blood
45	chr15:43396400-43397400	Enhancers	Primary B cells from cord blood	blood
46	chr15:43396400-43397400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
47	chr15:43396400-43397800	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
48	chr15:43396400-43399400	Active TSS	GM12878-XiMat	blood
49	chr15:43396600-43397200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
50	chr15:43396600-43397200	Genic enhancers	Primary hematopoietic stem cells	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links