Variant report

Variant	rs905289
Chromosome Location	chr11:8753552-8753553
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:8751869..8753571-chr11:8755150..8756715,2	K562	blood:
2	chr11:8746386..8749043-chr11:8752084..8753832,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000166444	Chromatin interaction

Extended variants
information (count: 34 )
Associated
traits (count: 8 )

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10160684	0.90[CEU][hapmap];0.92[GIH][hapmap];0.93[TSI][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10500705	0.91[CEU][hapmap];0.87[MEX][hapmap];0.84[TSI][hapmap]
rs10500707	0.91[CEU][hapmap];0.87[MEX][hapmap];0.84[TSI][hapmap]
rs10732515	0.95[CEU][hapmap];0.81[JPT][hapmap];0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10734636	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10734637	0.81[AMR][1000 genomes]
rs10743087	0.95[CEU][hapmap];0.95[GIH][hapmap];0.81[JPT][hapmap];0.92[MEX][hapmap];0.86[TSI][hapmap];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10743088	0.95[CEU][hapmap];0.97[GIH][hapmap];0.81[JPT][hapmap];0.96[MEX][hapmap];0.91[TSI][hapmap];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10743089	0.95[CEU][hapmap];0.95[GIH][hapmap];0.81[JPT][hapmap];0.92[MEX][hapmap];0.86[TSI][hapmap];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10769952	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10769953	0.91[CEU][hapmap];0.83[GIH][hapmap];0.81[JPT][hapmap];0.96[MEX][hapmap];0.89[TSI][hapmap];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10769954	0.83[AMR][1000 genomes]
rs10769959	0.95[CEU][hapmap]
rs1079452	0.95[CEU][hapmap];0.97[GIH][hapmap];0.81[JPT][hapmap];0.92[MEX][hapmap];0.86[TSI][hapmap];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11042058	0.91[CEU][hapmap];0.91[TSI][hapmap];0.86[EUR][1000 genomes]
rs11042066	0.95[CEU][hapmap];0.81[JPT][hapmap];0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs11042068	0.91[CEU][hapmap];0.87[MEX][hapmap];0.81[TSI][hapmap]
rs2173999	0.91[CEU][hapmap];0.81[JPT][hapmap]
rs2292045	0.91[CEU][hapmap]
rs2292046	0.95[CEU][hapmap];0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2873297	0.95[CEU][hapmap];0.97[GIH][hapmap];0.81[JPT][hapmap];0.96[MEX][hapmap];0.91[TSI][hapmap];0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs3763920	0.95[CEU][hapmap];0.97[GIH][hapmap];0.81[JPT][hapmap];0.92[MEX][hapmap];0.86[TSI][hapmap];0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs3812762	0.91[CEU][hapmap];0.92[MEX][hapmap];0.93[TSI][hapmap];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs3844099	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs3844100	0.90[CEU][hapmap];0.80[JPT][hapmap]
rs3850933	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4929910	0.95[CEU][hapmap];0.95[GIH][hapmap];0.81[JPT][hapmap];0.92[MEX][hapmap];0.86[TSI][hapmap];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4929931	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4929934	0.95[CEU][hapmap];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4929936	0.91[CEU][hapmap];0.92[MEX][hapmap];0.89[TSI][hapmap];0.80[AMR][1000 genomes]
rs6484008	1.00[ASW][hapmap];0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7120004	0.86[CEU][hapmap];0.95[GIH][hapmap];0.96[MEX][hapmap];0.91[TSI][hapmap];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7934519	0.90[CEU][hapmap];0.85[AMR][1000 genomes]
rs7952335	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]

mRNA abundance (count:8)

SNP	Gene	Cis/trans	Tissue	Source
rs905289	STK33	cis	cerebellum	SCAN
rs905289	TMEM9B	cis	parietal	SCAN
rs905289	SNORA45	cis	cerebellum	SCAN
rs905289	OR51F1	cis	parietal	SCAN
rs905289	HBB	cis	cerebellum	SCAN
rs905289	MRPL17	cis	cerebellum	SCAN
rs905289	RPL27A	cis	cerebellum	SCAN
rs905289	RPL27A	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:8736200-8773800	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr11:8742600-8754000	Weak transcription	Hela-S3	cervix
3	chr11:8744000-8754200	Weak transcription	A549	lung
4	chr11:8744200-8757600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr11:8745000-8754400	Weak transcription	Small Intestine	intestine
6	chr11:8745600-8754000	Weak transcription	HUES6 Cell Line	embryonic stem cell
7	chr11:8746000-8754200	Weak transcription	HUES64 Cell Line	embryonic stem cell
8	chr11:8746200-8757400	Weak transcription	H1 Cell Line	embryonic stem cell
9	chr11:8746400-8757200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr11:8746600-8757200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
11	chr11:8746600-8783000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr11:8747800-8756400	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr11:8748800-8754600	Weak transcription	Fetal Thymus	thymus
14	chr11:8749000-8754200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
15	chr11:8749400-8753600	Weak transcription	HUVEC	blood vessel
16	chr11:8749400-8754400	Weak transcription	Duodenum Mucosa	Duodenum
17	chr11:8749400-8754600	Weak transcription	Fetal Kidney	kidney
18	chr11:8750200-8753800	Strong transcription	Fetal Intestine Small	intestine
19	chr11:8750400-8753600	Strong transcription	Fetal Muscle Trunk	muscle
20	chr11:8750600-8753800	Weak transcription	Brain Cingulate Gyrus	brain
21	chr11:8750600-8754000	Weak transcription	Psoas Muscle	Psoas
22	chr11:8750800-8760200	Weak transcription	Fetal Brain Male	brain
23	chr11:8751200-8753600	Weak transcription	NH-A	brain
24	chr11:8751200-8754000	Weak transcription	Brain Angular Gyrus	brain
25	chr11:8751400-8753800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr11:8751600-8753600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
27	chr11:8751600-8753600	Weak transcription	Brain Anterior Caudate	brain
28	chr11:8751600-8754000	Weak transcription	Brain Inferior Temporal Lobe	brain
29	chr11:8751600-8754000	Weak transcription	Fetal Lung	lung
30	chr11:8751600-8754000	Weak transcription	HepG2	liver
31	chr11:8751600-8754000	Weak transcription	NHEK	skin
32	chr11:8751800-8753600	Weak transcription	Rectal Mucosa Donor 31	rectum
33	chr11:8752000-8755800	Enhancers	Right Atrium	heart
34	chr11:8752200-8753600	Genic enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
35	chr11:8752400-8755200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
36	chr11:8752400-8755400	Weak transcription	K562	blood
37	chr11:8752600-8753600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
38	chr11:8752600-8753600	Weak transcription	Gastric	stomach
39	chr11:8752600-8753600	Weak transcription	Sigmoid Colon	Sigmoid Colon
40	chr11:8752600-8754600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
41	chr11:8752600-8755800	Enhancers	Right Ventricle	heart
42	chr11:8752600-8756000	Enhancers	Primary B cells from peripheral blood	blood
43	chr11:8752600-8769800	Weak transcription	Colonic Mucosa	Colon
44	chr11:8752600-8775200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
45	chr11:8752800-8753600	Weak transcription	Fetal Intestine Large	intestine
46	chr11:8752800-8753600	Weak transcription	Placenta	Placenta
47	chr11:8752800-8753600	Genic enhancers	Stomach Smooth Muscle	stomach
48	chr11:8752800-8754000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
49	chr11:8752800-8754000	Weak transcription	Placenta Amnion	Placenta Amnion
50	chr11:8752800-8755600	Enhancers	Colon Smooth Muscle	Colon

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links