Variant report

Variant	rs4934390
Chromosome Location	chr10:90041834-90041835
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs1035796	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1035797	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1048956	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10749570	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10887796	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1426615	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1426616	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1946391	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4934391	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4934392	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs606424	0.82[EUR][1000 genomes]
rs7069968	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7097903	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv467414	chr10:90006507-90042154	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent Enhancer Genic enhancers	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
2	nsv895879	chr10:90015725-90219298	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4934390	RNLS	cis	brain	BrainEAC

Chromatin state (count:53 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:90032000-90042000	Weak transcription	Primary monocytes fromperipheralblood	blood
2	chr10:90032800-90042400	Weak transcription	Right Atrium	heart
3	chr10:90037800-90043200	Enhancers	Dnd41	blood
4	chr10:90038600-90042800	Enhancers	Primary hematopoietic stem cells short term culture	blood
5	chr10:90038800-90043000	Enhancers	Fetal Thymus	thymus
6	chr10:90039000-90043000	Enhancers	Primary hematopoietic stem cells	blood
7	chr10:90039200-90042800	Enhancers	HUES6 Cell Line	embryonic stem cell
8	chr10:90039800-90042600	Enhancers	iPS-20b Cell Line	embryonic stem cell
9	chr10:90039800-90042800	Enhancers	ES-I3 Cell Line	embryonic stem cell
10	chr10:90039800-90043000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
11	chr10:90039800-90043000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
12	chr10:90040200-90042000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
13	chr10:90040400-90042200	Enhancers	Pancreatic Islets	Pancreatic Islet
14	chr10:90040600-90042800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr10:90040600-90042800	Enhancers	HMEC	breast
16	chr10:90041000-90042200	Enhancers	A549	lung
17	chr10:90041000-90042800	Enhancers	Thymus	Thymus
18	chr10:90041000-90042800	Enhancers	Hela-S3	cervix
19	chr10:90041200-90042600	Enhancers	Primary B cells from cord blood	blood
20	chr10:90041200-90042800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
21	chr10:90041200-90043200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
22	chr10:90041400-90042000	Weak transcription	Fetal Stomach	stomach
23	chr10:90041400-90042000	Enhancers	Monocytes-CD14+_RO01746	blood
24	chr10:90041400-90042200	Enhancers	HUES64 Cell Line	embryonic stem cell
25	chr10:90041400-90042200	Enhancers	iPS-15b Cell Line	embryonic stem cell
26	chr10:90041400-90042400	Flanking Active TSS	NH-A	brain
27	chr10:90041400-90042600	Enhancers	HUES48 Cell Line	embryonic stem cell
28	chr10:90041400-90042800	Flanking Active TSS	Osteobl	bone
29	chr10:90041400-90043000	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
30	chr10:90041600-90042000	Enhancers	Cortex derived primary cultured neurospheres	brain
31	chr10:90041600-90042000	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
32	chr10:90041600-90042200	Flanking Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
33	chr10:90041600-90042400	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
34	chr10:90041600-90042400	Flanking Active TSS	Muscle Satellite Cultured Cells	--
35	chr10:90041600-90042600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
36	chr10:90041600-90042800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
37	chr10:90041600-90042800	Enhancers	Primary B cells from peripheral blood	blood
38	chr10:90041600-90042800	Enhancers	Primary T cells from cord blood	blood
39	chr10:90041600-90042800	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
40	chr10:90041600-90042800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
41	chr10:90041600-90042800	Enhancers	HSMM	muscle
42	chr10:90041600-90042800	Flanking Active TSS	NHDF-Ad	bronchial
43	chr10:90041600-90042800	Enhancers	NHEK	skin
44	chr10:90041600-90043000	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
45	chr10:90041600-90043000	Enhancers	Fetal Lung	lung
46	chr10:90041800-90042200	Enhancers	GM12878-XiMat	blood
47	chr10:90041800-90042400	Enhancers	Colon Smooth Muscle	Colon
48	chr10:90041800-90042400	Enhancers	Duodenum Smooth Muscle	Duodenum
49	chr10:90041800-90042400	Enhancers	Skeletal Muscle Male	skeletal muscle
50	chr10:90041800-90042600	Enhancers	ES-WA7 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links