Variant report

Variant	rs58424668
Chromosome Location	chr6:38339506-38339507
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:38331466..38333849-chr6:38336683..38339653,2	K562	blood:
2	chr6:38338839..38342583-chr6:38344309..38347723,4	K562	blood:
3	chr6:38331466..38333553-chr6:38337264..38339653,2	K562	blood:

Extended variants
information (count: 66 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs1983605	0.84[EUR][1000 genomes]
rs2294739	0.95[EUR][1000 genomes]
rs4140443	0.86[EUR][1000 genomes]
rs4711538	0.95[EUR][1000 genomes]
rs4711540	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4711541	0.87[EUR][1000 genomes]
rs4711543	0.86[EUR][1000 genomes]
rs4711544	0.87[EUR][1000 genomes]
rs4711546	0.84[EUR][1000 genomes]
rs4714149	0.83[EUR][1000 genomes]
rs4714151	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4714152	0.85[EUR][1000 genomes]
rs4714153	0.87[EUR][1000 genomes]
rs4714155	0.87[EUR][1000 genomes]
rs4714156	0.87[EUR][1000 genomes]
rs4714157	0.83[EUR][1000 genomes]
rs4714158	0.86[EUR][1000 genomes]
rs58807047	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6903060	0.83[EUR][1000 genomes]
rs6903611	0.86[EUR][1000 genomes]
rs6903767	0.86[EUR][1000 genomes]
rs6923701	0.84[EUR][1000 genomes]
rs742515	0.84[EUR][1000 genomes]
rs7743023	0.87[EUR][1000 genomes]
rs7748599	0.85[EUR][1000 genomes]
rs7749685	0.84[EUR][1000 genomes]
rs7756267	0.87[EUR][1000 genomes]
rs7759078	0.87[EUR][1000 genomes]
rs7759629	0.83[EUR][1000 genomes]
rs7764502	0.86[EUR][1000 genomes]
rs7766214	0.85[EUR][1000 genomes]
rs9296248	0.87[EUR][1000 genomes]
rs9296249	0.86[EUR][1000 genomes]
rs9349076	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9349077	0.88[EUR][1000 genomes]
rs9349078	0.84[EUR][1000 genomes]
rs9349079	0.84[EUR][1000 genomes]
rs9357269	0.87[EUR][1000 genomes]
rs9357270	0.87[EUR][1000 genomes]
rs9357271	0.86[EUR][1000 genomes]
rs9357272	0.83[EUR][1000 genomes]
rs9366957	0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9366959	0.86[EUR][1000 genomes]
rs9366960	0.86[EUR][1000 genomes]
rs9369055	0.87[EUR][1000 genomes]
rs9369057	0.88[EUR][1000 genomes]
rs9380740	0.94[EUR][1000 genomes]
rs9380741	0.87[EUR][1000 genomes]
rs9380742	0.86[EUR][1000 genomes]
rs9380743	0.85[EUR][1000 genomes]
rs9380745	0.81[AMR][1000 genomes]
rs9380747	0.86[EUR][1000 genomes]
rs9394493	0.87[EUR][1000 genomes]
rs9394494	0.87[EUR][1000 genomes]
rs9470865	0.87[EUR][1000 genomes]
rs9470867	0.87[EUR][1000 genomes]
rs9470868	0.86[EUR][1000 genomes]
rs9470874	0.83[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1021991	chr6:37893949-38738720	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	nsv885817	chr6:38036420-39019503	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
3	nsv534620	chr6:38049585-38602064	Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
4	nsv885818	chr6:38147745-38436317	Enhancers Weak transcription Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv885820	chr6:38166511-38468887	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv602957	chr6:38305770-38395874	Weak transcription Flanking Active TSS Enhancers Strong transcription Bivalent Enhancer Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv1032358	chr6:38323745-38415855	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	nsv1022724	chr6:38332368-38454527	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Strong transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:38333600-38342400	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr6:38337800-38339600	Enhancers	Adipose Nuclei	Adipose
3	chr6:38337800-38339600	Enhancers	Rectal Smooth Muscle	rectum
4	chr6:38337800-38340000	Enhancers	Pancreatic Islets	Pancreatic Islet
5	chr6:38338200-38341400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr6:38338400-38340000	Enhancers	Fetal Stomach	stomach
7	chr6:38338600-38339600	Enhancers	Brain Angular Gyrus	brain
8	chr6:38338600-38339600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
9	chr6:38338600-38339600	Enhancers	Left Ventricle	heart
10	chr6:38338600-38340800	Enhancers	Ovary	ovary
11	chr6:38338800-38339600	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
12	chr6:38338800-38340000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr6:38338800-38341400	Enhancers	NHDF-Ad	bronchial
14	chr6:38339000-38339600	Enhancers	Muscle Satellite Cultured Cells	--
15	chr6:38339000-38339600	Enhancers	Colon Smooth Muscle	Colon
16	chr6:38339200-38339600	Enhancers	Fetal Heart	heart
17	chr6:38339200-38339600	Enhancers	Small Intestine	intestine
18	chr6:38339200-38340000	Enhancers	HSMMtube	muscle
19	chr6:38339200-38340400	Weak transcription	Cortex derived primary cultured neurospheres	brain
20	chr6:38339400-38340000	Enhancers	Skeletal Muscle Male	skeletal muscle
21	chr6:38339400-38340400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
22	chr6:38339400-38340600	Weak transcription	Fetal Kidney	kidney
23	chr6:38339400-38340800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
24	chr6:38339400-38342200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
25	chr6:38339400-38342400	Weak transcription	Brain Substantia Nigra	brain
26	chr6:38339400-38342400	Weak transcription	Psoas Muscle	Psoas
27	chr6:38339400-38342400	Weak transcription	Right Atrium	heart
28	chr6:38339400-38342400	Weak transcription	Right Ventricle	heart
29	chr6:38339400-38348200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links