Variant report

Variant	rs6151661
Chromosome Location	chr5:79973195-79973196
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:79968856..79970764-chr5:79971843..79974129,2	K562	blood:
2	chr5:79967852..79970356-chr5:79972454..79974129,2	K562	blood:

Extended variants
information (count: 5 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs6864512	0.82[EUR][1000 genomes]
rs6868774	0.82[EUR][1000 genomes]
rs6887400	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7712332	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[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	nsv1024844	chr5:79862428-80860430	Weak transcription Strong transcription Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs6151661	DHFR	cis	Muscle Skeletal	GTEx
rs6151661	DHFR///LOC643509	Cis_1M	lymphoblastoid	RTeQTL
rs6151661	MSH3	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:79951600-80015600	Weak transcription	Small Intestine	intestine
2	chr5:79951800-79982800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
3	chr5:79952200-79975400	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr5:79952400-79975400	Weak transcription	HSMMtube	muscle
5	chr5:79952400-79976600	Strong transcription	Fetal Thymus	thymus
6	chr5:79952400-79976800	Strong transcription	Primary T cells fromperipheralblood	blood
7	chr5:79952400-79983000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
8	chr5:79952600-79985200	Strong transcription	Monocytes-CD14+_RO01746	blood
9	chr5:79952600-79991600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
10	chr5:79953200-79980800	Strong transcription	Primary monocytes fromperipheralblood	blood
11	chr5:79956200-79979000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr5:79956400-80015600	Weak transcription	Psoas Muscle	Psoas
13	chr5:79958200-79998000	Weak transcription	Fetal Brain Male	brain
14	chr5:79961200-79977000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
15	chr5:79961600-79974000	Weak transcription	Colon Smooth Muscle	Colon
16	chr5:79962800-80015600	Weak transcription	A549	lung
17	chr5:79963600-80038600	Weak transcription	Right Ventricle	heart
18	chr5:79963800-79979600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
19	chr5:79964000-79977800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr5:79964000-79984600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
21	chr5:79964000-79984800	Weak transcription	H9 Cell Line	embryonic stem cell
22	chr5:79964000-79998000	Weak transcription	Aorta	Aorta
23	chr5:79964200-79975000	Weak transcription	Fetal Brain Female	brain
24	chr5:79964400-79975400	Weak transcription	Colonic Mucosa	Colon
25	chr5:79964400-79977800	Weak transcription	Esophagus	oesophagus
26	chr5:79964400-79983200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
27	chr5:79964400-79999200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
28	chr5:79964600-79974800	Weak transcription	Placenta Amnion	Placenta Amnion
29	chr5:79964600-79983000	Weak transcription	Brain Angular Gyrus	brain
30	chr5:79964800-79974800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
31	chr5:79964800-79976800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
32	chr5:79964800-79998000	Weak transcription	Gastric	stomach
33	chr5:79964800-80057800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
34	chr5:79965000-79975400	Weak transcription	Pancreas	Pancrea
35	chr5:79965000-79977200	Strong transcription	Primary B cells from peripheral blood	blood
36	chr5:79965000-80021400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
37	chr5:79965200-79980400	Weak transcription	Brain Germinal Matrix	brain
38	chr5:79965600-79978400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
39	chr5:79965800-79973200	Strong transcription	HUES48 Cell Line	embryonic stem cell
40	chr5:79965800-79978400	Strong transcription	Dnd41	blood
41	chr5:79966000-79976200	Strong transcription	HSMM	muscle
42	chr5:79966000-79976600	Strong transcription	Fetal Intestine Large	intestine
43	chr5:79966200-79973200	Strong transcription	Fetal Muscle Trunk	muscle
44	chr5:79967000-79977000	Strong transcription	Primary hematopoietic stem cells	blood
45	chr5:79968200-79979200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
46	chr5:79968400-79975800	Strong transcription	Skeletal Muscle Female	skeletal muscle
47	chr5:79968400-79976000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
48	chr5:79968400-79976000	Strong transcription	Osteobl	bone
49	chr5:79968400-79976600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
50	chr5:79968600-79973400	Strong transcription	Fetal Lung	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links