Variant report

Variant	rs3829842
Chromosome Location	chr6:167042684-167042685
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	REST	chr6:167042577-167042827	H1-hESC	embryonic stem cell:	n/a	n/a
2	REST	chr6:167042561-167042805	H1-hESC	embryonic stem cell:	n/a	n/a
3	POLR2A	chr6:167038603-167043490	IMR90	lung:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:167042473..167044859-chr6:167051026..167053525,2	MCF-7	breast:
2	chr6:167042665..167045576-chr6:167045886..167047673,3	K562	blood:

Variant related genes	Relation type
RPS6KA2	TF binding region

Extended variants
information (count: 18 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs12174679	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs16899265	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4145431	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62438669	0.82[EUR][1000 genomes]
rs6923603	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6941412	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs916388	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs916390	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9348156	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9356497	0.89[EUR][1000 genomes]
rs9364861	0.86[EUR][1000 genomes]
rs9364862	0.86[EUR][1000 genomes]
rs963302	0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3490076	chr6:166727901-167306743	Strong transcription Weak transcription Flanking Active TSS Genic enhancers Enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	25 gene(s)	inside rSNPs	diseases
2	esv3490077	chr6:166727901-167306743	Weak transcription Transcr. at gene 5' and 3' Bivalent Enhancer Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	25 gene(s)	inside rSNPs	diseases
3	nsv605260	chr6:166984094-167455139	Enhancers Strong transcription Weak transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	13 gene(s)	inside rSNPs	diseases
4	nsv432984	chr6:167018915-167181613	Bivalent Enhancer Enhancers Weak transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv1023649	chr6:167026469-167060732	Active TSS Weak transcription Enhancers Genic enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:74 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:167041600-167042800	Flanking Active TSS	Adipose Nuclei	Adipose
2	chr6:167041600-167042800	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
3	chr6:167041600-167042800	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
4	chr6:167041600-167042800	Enhancers	Spleen	Spleen
5	chr6:167041800-167042800	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr6:167041800-167042800	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr6:167041800-167042800	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr6:167041800-167042800	Flanking Active TSS	Brain Germinal Matrix	brain
9	chr6:167042000-167042800	Bivalent Enhancer	Primary B cells from peripheral blood	blood
10	chr6:167042200-167042800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr6:167042200-167042800	Flanking Bivalent TSS/Enh	HUES6 Cell Line	embryonic stem cell
12	chr6:167042200-167042800	Bivalent Enhancer	Primary monocytes fromperipheralblood	blood
13	chr6:167042200-167042800	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
14	chr6:167042200-167042800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr6:167042200-167042800	Enhancers	Brain Substantia Nigra	brain
16	chr6:167042200-167042800	Enhancers	Colonic Mucosa	Colon
17	chr6:167042200-167042800	Enhancers	Esophagus	oesophagus
18	chr6:167042200-167042800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
19	chr6:167042200-167042800	Bivalent Enhancer	Fetal Intestine Large	intestine
20	chr6:167042200-167042800	Bivalent Enhancer	Fetal Thymus	thymus
21	chr6:167042200-167042800	Enhancers	Pancreas	Pancrea
22	chr6:167042200-167042800	Enhancers	Psoas Muscle	Psoas
23	chr6:167042200-167042800	Enhancers	Stomach Mucosa	stomach
24	chr6:167042200-167042800	Enhancers	HMEC	breast
25	chr6:167042200-167043000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
26	chr6:167042200-167043000	Enhancers	Left Ventricle	heart
27	chr6:167042200-167043000	Enhancers	Lung	lung
28	chr6:167042200-167043800	Enhancers	HSMM	muscle
29	chr6:167042200-167044200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
30	chr6:167042200-167044200	Enhancers	HSMMtube	muscle
31	chr6:167042400-167042800	Bivalent Enhancer	H1 Cell Line	embryonic stem cell
32	chr6:167042400-167042800	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
33	chr6:167042400-167042800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
34	chr6:167042400-167042800	Bivalent Enhancer	Primary neutrophils fromperipheralblood	blood
35	chr6:167042400-167042800	Bivalent Enhancer	Primary B cells from cord blood	blood
36	chr6:167042400-167042800	Bivalent Enhancer	Primary hematopoietic stem cells	blood
37	chr6:167042400-167042800	Bivalent Enhancer	Primary Natural Killer cells fromperipheralblood	blood
38	chr6:167042400-167042800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
39	chr6:167042400-167042800	Enhancers	Fetal Brain Male	brain
40	chr6:167042400-167042800	Enhancers	Fetal Muscle Trunk	muscle
41	chr6:167042400-167042800	Bivalent Enhancer	Fetal Muscle Leg	muscle
42	chr6:167042400-167042800	Enhancers	Rectal Smooth Muscle	rectum
43	chr6:167042400-167042800	Bivalent Enhancer	Dnd41	blood
44	chr6:167042400-167042800	Bivalent Enhancer	Monocytes-CD14+_RO01746	blood
45	chr6:167042400-167043000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
46	chr6:167042400-167043000	Enhancers	Brain Angular Gyrus	brain
47	chr6:167042400-167043000	Enhancers	Right Ventricle	heart
48	chr6:167042400-167043200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
49	chr6:167042400-167043200	Enhancers	Fetal Heart	heart
50	chr6:167042400-167043600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links