Variant report

Variant	rs4943009
Chromosome Location	chr13:52172587-52172588
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr13:52167123..52169021-chr13:52171538..52173989,2	MCF-7	breast:
2	chr13:52025241..52027687-chr13:52171016..52174536,3	MCF-7	breast:
3	chr13:52023374..52025771-chr13:52171326..52173571,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SERPINE3-6	chr13:52172552-52172880	NONHSAT033939

Variant related genes	Relation type
ENSG00000242893	Chromatin interaction
ENSG00000102786	Chromatin interaction
ENSG00000236778	Chromatin interaction

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs12585249	0.89[GIH][hapmap]
rs17075902	0.89[GIH][hapmap]
rs3803201	0.94[GIH][hapmap]
rs3825410	0.94[GIH][hapmap]
rs4075628	1.00[CEU][hapmap];0.81[CHB][hapmap];0.94[GIH][hapmap];0.95[EUR][1000 genomes]
rs4625625	0.80[CHD][hapmap];0.89[GIH][hapmap]
rs4943005	1.00[CEU][hapmap];0.85[GIH][hapmap];0.92[EUR][1000 genomes]
rs745374	0.85[GIH][hapmap]
rs9316551	0.84[CHB][hapmap];0.82[CHD][hapmap];0.95[JPT][hapmap];0.87[TSI][hapmap];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9563063	0.85[GIH][hapmap]
rs9563065	0.95[EUR][1000 genomes]
rs9563066	0.95[EUR][1000 genomes]
rs9563067	0.94[GIH][hapmap]
rs9568644	1.00[CEU][hapmap];0.81[CHB][hapmap];0.95[EUR][1000 genomes]
rs9568650	0.89[GIH][hapmap]

No data

Chromatin state (count:83 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:52159600-52174600	Weak transcription	Spleen	Spleen
2	chr13:52160200-52181400	Weak transcription	Thymus	Thymus
3	chr13:52160400-52173400	Weak transcription	Right Atrium	heart
4	chr13:52160400-52177000	Weak transcription	Right Ventricle	heart
5	chr13:52162800-52180200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
6	chr13:52163200-52182600	Weak transcription	Ovary	ovary
7	chr13:52165400-52174200	Weak transcription	Primary T helper cells fromperipheralblood	blood
8	chr13:52165600-52173400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
9	chr13:52165600-52173400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
10	chr13:52165600-52188600	Weak transcription	Fetal Stomach	stomach
11	chr13:52165800-52173200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
12	chr13:52165800-52179000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
13	chr13:52166000-52172600	Weak transcription	Adipose Nuclei	Adipose
14	chr13:52166000-52172600	Weak transcription	Brain Cingulate Gyrus	brain
15	chr13:52166000-52173600	Weak transcription	Brain Inferior Temporal Lobe	brain
16	chr13:52166000-52175800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
17	chr13:52166000-52176400	Weak transcription	Pancreatic Islets	Pancreatic Islet
18	chr13:52166000-52181200	Weak transcription	NH-A	brain
19	chr13:52166200-52173400	Weak transcription	GM12878-XiMat	blood
20	chr13:52166200-52175600	Weak transcription	Cortex derived primary cultured neurospheres	brain
21	chr13:52166200-52178800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
22	chr13:52166200-52181200	Weak transcription	NHLF	lung
23	chr13:52166400-52176200	Weak transcription	Osteobl	bone
24	chr13:52166400-52181200	Weak transcription	Hela-S3	cervix
25	chr13:52166600-52173400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr13:52167200-52173400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
27	chr13:52167600-52179800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
28	chr13:52168400-52177400	Weak transcription	Lung	lung
29	chr13:52168400-52194400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
30	chr13:52168600-52174400	Weak transcription	Muscle Satellite Cultured Cells	--
31	chr13:52168600-52177600	Enhancers	Primary monocytes fromperipheralblood	blood
32	chr13:52168800-52173600	Enhancers	Monocytes-CD14+_RO01746	blood
33	chr13:52169200-52174000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
34	chr13:52169400-52173400	Weak transcription	Brain Angular Gyrus	brain
35	chr13:52169400-52174600	Weak transcription	Aorta	Aorta
36	chr13:52169600-52174400	Weak transcription	K562	blood
37	chr13:52169800-52173400	Weak transcription	Primary B cells from peripheral blood	blood
38	chr13:52169800-52173400	Weak transcription	Primary T helper cells PMA-I stimulated	--
39	chr13:52169800-52174400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
40	chr13:52169800-52174400	Weak transcription	Pancreas	Pancrea
41	chr13:52169800-52174600	Weak transcription	Left Ventricle	heart
42	chr13:52169800-52176000	Weak transcription	Primary T cells from cord blood	blood
43	chr13:52169800-52179600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
44	chr13:52169800-52187000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
45	chr13:52169800-52188600	Weak transcription	Esophagus	oesophagus
46	chr13:52169800-52188600	Weak transcription	Gastric	stomach
47	chr13:52170000-52173400	Weak transcription	Primary B cells from cord blood	blood
48	chr13:52170000-52173400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
49	chr13:52170000-52175000	Enhancers	HepG2	liver
50	chr13:52170200-52172600	Weak transcription	Primary hematopoietic stem cells	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links