Variant report

Variant	rs9563055
Chromosome Location	chr13:52015335-52015336
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr13:52015156..52017204-chr13:52376088..52377740,2	MCF-7	breast:
2	chr13:52013121..52015386-chr13:52344504..52346745,2	MCF-7	breast:
3	chr13:52010759..52013219-chr13:52013785..52015832,2	MCF-7	breast:

Extended variants
information (count: 135 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:135)

rs_ID	r²[population]
rs11148215	0.93[EUR][1000 genomes]
rs11148216	1.00[CEU][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs11148217	1.00[CEU][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs11148219	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11838784	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs11839165	0.93[EUR][1000 genomes]
rs11842573	0.93[EUR][1000 genomes]
rs11842878	0.93[EUR][1000 genomes]
rs11843638	0.93[EUR][1000 genomes]
rs11843641	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs12100084	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12100112	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12184757	1.00[CEU][hapmap]
rs12584325	0.93[EUR][1000 genomes]
rs12584416	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs12585171	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs12585343	0.93[EUR][1000 genomes]
rs12586110	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs1413103	1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs1547710	0.82[JPT][hapmap]
rs1570549	0.85[EUR][1000 genomes]
rs1570550	0.85[EUR][1000 genomes]
rs17194921	0.93[EUR][1000 genomes]
rs17194928	0.93[EUR][1000 genomes]
rs17194935	0.93[EUR][1000 genomes]
rs17194955	0.93[EUR][1000 genomes]
rs17194985	0.93[EUR][1000 genomes]
rs17195027	0.93[EUR][1000 genomes]
rs17252180	0.82[JPT][hapmap]
rs17252193	0.82[JPT][hapmap]
rs17252200	0.86[CHB][hapmap];0.82[JPT][hapmap]
rs17529985	0.86[EUR][1000 genomes]
rs17790799	0.93[EUR][1000 genomes]
rs17790811	0.93[EUR][1000 genomes]
rs17790838	0.93[EUR][1000 genomes]
rs17837214	0.86[CHB][hapmap];0.82[JPT][hapmap]
rs17837215	0.82[JPT][hapmap]
rs17837216	0.82[JPT][hapmap]
rs17837217	0.86[CHB][hapmap];0.82[JPT][hapmap]
rs4941699	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4942993	0.89[EUR][1000 genomes]
rs4942994	0.89[EUR][1000 genomes]
rs4942995	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4942996	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4942997	1.00[CEU][hapmap];1.00[YRI][hapmap];0.93[EUR][1000 genomes]
rs4942998	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs4942999	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59024783	0.92[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs59215783	0.85[EUR][1000 genomes]
rs60860538	0.85[EUR][1000 genomes]
rs61956888	0.85[EUR][1000 genomes]
rs61956889	0.85[EUR][1000 genomes]
rs61956909	0.93[EUR][1000 genomes]
rs61956910	0.93[EUR][1000 genomes]
rs61956911	0.86[EUR][1000 genomes]
rs61956912	0.93[EUR][1000 genomes]
rs61956913	0.93[EUR][1000 genomes]
rs61956914	0.93[EUR][1000 genomes]
rs61956915	0.93[EUR][1000 genomes]
rs61956916	0.93[EUR][1000 genomes]
rs61956917	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61956937	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61956938	0.93[EUR][1000 genomes]
rs61956942	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61956943	0.93[EUR][1000 genomes]
rs61956944	0.83[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs61956945	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs61956947	0.93[EUR][1000 genomes]
rs61956949	0.93[EUR][1000 genomes]
rs61956950	0.93[EUR][1000 genomes]
rs61956951	0.93[EUR][1000 genomes]
rs61956952	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61956955	0.93[EUR][1000 genomes]
rs73195977	0.93[EUR][1000 genomes]
rs73195982	0.93[EUR][1000 genomes]
rs73195996	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73197808	0.93[EUR][1000 genomes]
rs7333988	0.85[JPT][hapmap];0.82[EUR][1000 genomes]
rs7400061	0.93[EUR][1000 genomes]
rs7988157	0.89[EUR][1000 genomes]
rs7990114	0.93[EUR][1000 genomes]
rs7992891	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7995268	1.00[CEU][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs8001625	0.85[EUR][1000 genomes]
rs9316535	0.93[EUR][1000 genomes]
rs9316537	0.85[JPT][hapmap];0.82[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9563041	0.93[EUR][1000 genomes]
rs9563042	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs9563043	0.93[EUR][1000 genomes]
rs9563044	1.00[CEU][hapmap];1.00[YRI][hapmap];0.93[EUR][1000 genomes]
rs9563045	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs9563047	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs9563049	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9563050	1.00[CEU][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs9563052	0.92[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs9563053	0.93[EUR][1000 genomes]
rs9563054	0.93[EUR][1000 genomes]
rs9563056	0.86[EUR][1000 genomes]
rs9563058	0.86[CHB][hapmap]
rs9563062	0.86[CHB][hapmap]
rs9568564	0.85[EUR][1000 genomes]
rs9568565	0.85[EUR][1000 genomes]
rs9568566	0.93[EUR][1000 genomes]
rs9568567	0.93[EUR][1000 genomes]
rs9568568	0.93[EUR][1000 genomes]
rs9568569	0.93[EUR][1000 genomes]
rs9568570	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs9568571	0.93[EUR][1000 genomes]
rs9568572	0.93[EUR][1000 genomes]
rs9568573	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs9568574	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs9568575	0.89[EUR][1000 genomes]
rs9568576	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs9568578	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs9568579	0.93[EUR][1000 genomes]
rs9568580	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9568581	1.00[CEU][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs9568585	0.93[EUR][1000 genomes]
rs9568586	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9568588	0.93[EUR][1000 genomes]
rs9568589	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs9568590	0.93[EUR][1000 genomes]
rs9568591	0.93[EUR][1000 genomes]
rs9568592	0.93[EUR][1000 genomes]
rs9568593	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs9568594	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9568596	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9568609	0.86[EUR][1000 genomes]
rs9568635	1.00[CEU][hapmap]
rs9634684	1.00[CEU][hapmap]
rs9634685	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs9634838	0.93[EUR][1000 genomes]
rs9634839	0.93[EUR][1000 genomes]
rs9634840	0.93[EUR][1000 genomes]
rs9634844	0.86[EUR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9563055	Hs.123474	cis	multi-tissue	Pritchard

Chromatin state (count:95 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:51945800-52016600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr13:51949400-52025000	Weak transcription	Fetal Muscle Leg	muscle
3	chr13:51950000-52025200	Weak transcription	Fetal Muscle Trunk	muscle
4	chr13:51963200-52024800	Weak transcription	Fetal Intestine Large	intestine
5	chr13:51971800-52025000	Weak transcription	Fetal Stomach	stomach
6	chr13:51972000-52016000	Weak transcription	Pancreas	Pancrea
7	chr13:51984400-52024800	Weak transcription	Placenta Amnion	Placenta Amnion
8	chr13:51988800-52024400	Weak transcription	Rectal Smooth Muscle	rectum
9	chr13:51990000-52016600	Weak transcription	Fetal Intestine Small	intestine
10	chr13:51992400-52025400	Weak transcription	Esophagus	oesophagus
11	chr13:51995400-52023400	Weak transcription	Fetal Kidney	kidney
12	chr13:51995400-52024600	Weak transcription	Brain Inferior Temporal Lobe	brain
13	chr13:51995600-52019000	Weak transcription	Gastric	stomach
14	chr13:51995600-52023400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr13:51995600-52025000	Weak transcription	Right Ventricle	heart
16	chr13:51995600-52025600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr13:51997000-52025200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr13:51997400-52024400	Weak transcription	Thymus	Thymus
19	chr13:51997600-52023200	Weak transcription	Primary hematopoietic stem cells	blood
20	chr13:51997600-52023600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
21	chr13:51999800-52022400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
22	chr13:51999800-52023000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
23	chr13:52000600-52025200	Weak transcription	Small Intestine	intestine
24	chr13:52001200-52022800	Weak transcription	Rectal Mucosa Donor 31	rectum
25	chr13:52001400-52024600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
26	chr13:52001600-52024400	Weak transcription	Brain Cingulate Gyrus	brain
27	chr13:52001800-52023000	Weak transcription	Duodenum Smooth Muscle	Duodenum
28	chr13:52002200-52024000	Weak transcription	Brain Anterior Caudate	brain
29	chr13:52003600-52024200	Weak transcription	NHLF	lung
30	chr13:52003800-52023400	Weak transcription	H1 Cell Line	embryonic stem cell
31	chr13:52003800-52024600	Weak transcription	Skeletal Muscle Female	skeletal muscle
32	chr13:52004000-52021800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
33	chr13:52004200-52024800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
34	chr13:52004400-52019600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
35	chr13:52004400-52023000	Weak transcription	Fetal Lung	lung
36	chr13:52004400-52023200	Weak transcription	HepG2	liver
37	chr13:52004400-52023400	Weak transcription	Primary monocytes fromperipheralblood	blood
38	chr13:52004400-52024200	Weak transcription	Adipose Nuclei	Adipose
39	chr13:52004400-52024600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
40	chr13:52004600-52020400	Weak transcription	Fetal Thymus	thymus
41	chr13:52004600-52023400	Weak transcription	Primary B cells from peripheral blood	blood
42	chr13:52004600-52023600	Weak transcription	Cortex derived primary cultured neurospheres	brain
43	chr13:52004600-52024200	Weak transcription	Primary T cells fromperipheralblood	blood
44	chr13:52004600-52024200	Weak transcription	Duodenum Mucosa	Duodenum
45	chr13:52004600-52024800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
46	chr13:52004600-52025200	Weak transcription	Sigmoid Colon	Sigmoid Colon
47	chr13:52004800-52021400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
48	chr13:52004800-52022600	Weak transcription	Placenta	Placenta
49	chr13:52004800-52023400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
50	chr13:52004800-52023400	Weak transcription	Primary T helper cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links