Variant report

Variant	rs11952038
Chromosome Location	chr5:74050440-74050441
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs11950373	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11950502	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11951326	1.00[AMR][1000 genomes]
rs11952887	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11954065	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11955669	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11956317	1.00[AMR][1000 genomes]
rs11957259	1.00[AMR][1000 genomes]
rs11960152	1.00[AMR][1000 genomes]
rs11960413	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1447452	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16872289	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16872292	1.00[AMR][1000 genomes]
rs16872305	1.00[AMR][1000 genomes]
rs16872321	1.00[AMR][1000 genomes]
rs1813646	1.00[AMR][1000 genomes]
rs35565659	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55828592	1.00[AMR][1000 genomes]
rs55941676	1.00[AMR][1000 genomes]
rs57371810	1.00[AMR][1000 genomes]
rs60089359	1.00[AMR][1000 genomes]
rs60574440	0.85[AFR][1000 genomes]
rs60746244	1.00[AMR][1000 genomes]
rs61373898	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61589039	1.00[AMR][1000 genomes]
rs6870452	1.00[AMR][1000 genomes]
rs6870609	1.00[AMR][1000 genomes]
rs6871873	1.00[AMR][1000 genomes]
rs6885078	1.00[AMR][1000 genomes]
rs73762944	1.00[AMR][1000 genomes]
rs73762946	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73762947	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73762955	1.00[AMR][1000 genomes]
rs73762957	1.00[AMR][1000 genomes]
rs73762958	1.00[AMR][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	nsv598653	chr5:73992881-74095542	Active TSS Weak transcription Strong transcription 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 miRNA target site	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:73982000-74061800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr5:73999800-74060800	Weak transcription	Pancreas	Pancrea
3	chr5:73999800-74062200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr5:74002600-74051600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr5:74002600-74061800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr5:74008400-74060200	Strong transcription	Primary monocytes fromperipheralblood	blood
7	chr5:74008400-74060200	Strong transcription	Monocytes-CD14+_RO01746	blood
8	chr5:74010400-74059600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
9	chr5:74012000-74051600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr5:74014400-74051600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr5:74016400-74052400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
12	chr5:74018000-74060800	Weak transcription	Gastric	stomach
13	chr5:74018600-74062000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
14	chr5:74019200-74058600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr5:74021600-74060800	Weak transcription	Spleen	Spleen
16	chr5:74022000-74060800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
17	chr5:74022800-74052000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr5:74025000-74062000	Weak transcription	Aorta	Aorta
19	chr5:74027400-74052000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
20	chr5:74029600-74052200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
21	chr5:74031800-74052600	Weak transcription	Small Intestine	intestine
22	chr5:74032000-74054200	Weak transcription	Lung	lung
23	chr5:74033800-74053000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
24	chr5:74038000-74052000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
25	chr5:74040000-74054200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
26	chr5:74042800-74051600	Weak transcription	Cortex derived primary cultured neurospheres	brain
27	chr5:74043200-74052400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
28	chr5:74043200-74054200	Weak transcription	Colonic Mucosa	Colon
29	chr5:74043800-74051600	Weak transcription	Psoas Muscle	Psoas
30	chr5:74043800-74052200	Weak transcription	Rectal Smooth Muscle	rectum
31	chr5:74044000-74052200	Weak transcription	HSMMtube	muscle
32	chr5:74044400-74061000	Weak transcription	Fetal Heart	heart
33	chr5:74044400-74061000	Weak transcription	Right Ventricle	heart
34	chr5:74045000-74059600	Strong transcription	HUES64 Cell Line	embryonic stem cell
35	chr5:74045200-74052600	Weak transcription	Fetal Stomach	stomach
36	chr5:74045200-74061800	Weak transcription	Esophagus	oesophagus
37	chr5:74045400-74050600	Strong transcription	Primary hematopoietic stem cells	blood
38	chr5:74045800-74058800	Strong transcription	Primary T cells from cord blood	blood
39	chr5:74046000-74051000	Weak transcription	HMEC	breast
40	chr5:74046000-74052000	Weak transcription	HUVEC	blood vessel
41	chr5:74046600-74052000	Weak transcription	Thymus	Thymus
42	chr5:74046800-74051600	Weak transcription	Osteobl	bone
43	chr5:74046800-74052000	Weak transcription	Hela-S3	cervix
44	chr5:74046800-74052200	Weak transcription	Brain Substantia Nigra	brain
45	chr5:74046800-74052200	Weak transcription	Placenta Amnion	Placenta Amnion
46	chr5:74046800-74052400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
47	chr5:74047000-74051400	Weak transcription	Fetal Kidney	kidney
48	chr5:74047000-74051600	Weak transcription	Brain Anterior Caudate	brain
49	chr5:74047000-74052000	Weak transcription	Fetal Brain Male	brain
50	chr5:74047000-74054200	Weak transcription	Brain Inferior Temporal Lobe	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links