Variant report

Variant	rs11742313
Chromosome Location	chr5:145210648-145210649
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:145203763..145206199-chr5:145209923..145212863,2	K562	blood:
2	chr5:145207820..145210884-chr5:145212299..145217868,7	K562	blood:
3	chr5:145209353..145211706-chr5:145407093..145409192,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000186314	Chromatin interaction

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10052931	0.95[EUR][1000 genomes]
rs11951153	0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs1549900	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2029486	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2087562	1.00[CEU][hapmap];0.94[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs340044	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs340046	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs340047	0.96[CEU][hapmap];0.88[CHB][hapmap];0.87[JPT][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs394386	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];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs413654	0.92[CEU][hapmap];1.00[CHB][hapmap];0.91[YRI][hapmap]
rs4334931	0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4495235	0.87[AFR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4529254	1.00[CEU][hapmap];0.88[CHB][hapmap];0.94[JPT][hapmap];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs453090	1.00[CEU][hapmap];0.88[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs620327	0.89[CEU][hapmap];1.00[CHB][hapmap];0.83[JPT][hapmap];0.91[YRI][hapmap];0.92[ASN][1000 genomes]
rs663205	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs681582	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs6870210	1.00[CEU][hapmap];0.94[CHB][hapmap];0.93[JPT][hapmap];0.91[YRI][hapmap];0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6898776	1.00[CEU][hapmap];0.87[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs72816435	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7704574	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9716744	0.81[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv19333	chr5:145209035-145213523	Enhancers Weak transcription Active TSS Flanking Active TSS	Chromatin interactive region	3 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:60 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:145162800-145212800	Weak transcription	Rectal Smooth Muscle	rectum
2	chr5:145170600-145213400	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr5:145172800-145214200	Weak transcription	Right Ventricle	heart
4	chr5:145183600-145214000	Weak transcription	Fetal Kidney	kidney
5	chr5:145195200-145212800	Weak transcription	Colonic Mucosa	Colon
6	chr5:145196200-145211800	Weak transcription	Gastric	stomach
7	chr5:145196800-145214000	Weak transcription	Fetal Stomach	stomach
8	chr5:145198000-145213600	Weak transcription	Stomach Smooth Muscle	stomach
9	chr5:145198800-145212000	Weak transcription	Aorta	Aorta
10	chr5:145201400-145214200	Weak transcription	Lung	lung
11	chr5:145207200-145214200	Weak transcription	Sigmoid Colon	Sigmoid Colon
12	chr5:145207400-145212600	Weak transcription	Fetal Intestine Small	intestine
13	chr5:145207400-145212800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr5:145207400-145213800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr5:145207400-145214000	Weak transcription	NHEK	skin
16	chr5:145208400-145213600	Weak transcription	Skeletal Muscle Female	skeletal muscle
17	chr5:145208800-145213400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
18	chr5:145209000-145210800	Enhancers	Liver	Liver
19	chr5:145209000-145211000	Enhancers	Muscle Satellite Cultured Cells	--
20	chr5:145209000-145211200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr5:145209000-145211200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
22	chr5:145209000-145211200	Enhancers	HUVEC	blood vessel
23	chr5:145209000-145211400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
24	chr5:145209000-145211600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
25	chr5:145209000-145211600	Enhancers	Rectal Mucosa Donor 31	rectum
26	chr5:145209000-145213400	Enhancers	HepG2	liver
27	chr5:145209200-145211000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr5:145209200-145211000	Enhancers	Fetal Lung	lung
29	chr5:145209200-145211000	Enhancers	NHLF	lung
30	chr5:145209200-145211000	Enhancers	Osteobl	bone
31	chr5:145209200-145211200	Enhancers	Primary hematopoietic stem cells	blood
32	chr5:145209200-145211200	Enhancers	Colon Smooth Muscle	Colon
33	chr5:145209200-145211400	Enhancers	Primary hematopoietic stem cells short term culture	blood
34	chr5:145209200-145212600	Enhancers	K562	blood
35	chr5:145209400-145212800	Weak transcription	Ovary	ovary
36	chr5:145209400-145212800	Weak transcription	Pancreas	Pancrea
37	chr5:145209600-145211200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
38	chr5:145209600-145211200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
39	chr5:145209600-145213200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
40	chr5:145209800-145212200	Weak transcription	Fetal Intestine Large	intestine
41	chr5:145209800-145214000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
42	chr5:145209800-145214200	Weak transcription	Small Intestine	intestine
43	chr5:145209800-145214200	Weak transcription	Hela-S3	cervix
44	chr5:145210000-145210800	Weak transcription	Left Ventricle	heart
45	chr5:145210000-145211400	Weak transcription	Stomach Mucosa	stomach
46	chr5:145210200-145210800	Enhancers	Duodenum Smooth Muscle	Duodenum
47	chr5:145210400-145211000	Enhancers	Breast Myoepithelial Primary Cells	Breast
48	chr5:145210400-145211200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
49	chr5:145210400-145211200	Enhancers	NH-A	brain
50	chr5:145210400-145212800	Enhancers	Rectal Mucosa Donor 29	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links