Variant report

Variant	rs3778367
Chromosome Location	chr6:167034788-167034789
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10946178	1.00[CEU][hapmap];1.00[YRI][hapmap];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12196315	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12199983	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs12202785	0.91[CHB][hapmap];0.83[JPT][hapmap];0.81[ASN][1000 genomes]
rs12203904	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12204787	1.00[CEU][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12215660	0.91[CHB][hapmap];0.83[JPT][hapmap]
rs3778369	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3778370	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3778371	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3778372	1.00[CEU][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3778373	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3778375	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3799566	0.94[CEU][hapmap];0.82[EUR][1000 genomes]
rs3799570	0.94[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3799571	1.00[CEU][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58727224	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60145177	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6456097	0.95[CEU][hapmap];0.85[EUR][1000 genomes]
rs6456098	0.94[CEU][hapmap];0.85[EUR][1000 genomes]
rs6916042	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs6919949	0.91[CHB][hapmap];0.83[JPT][hapmap]
rs6929319	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs72503823	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs873070	1.00[CEU][hapmap];0.82[YRI][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs873071	1.00[CEU][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs874153	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs916389	0.95[CEU][hapmap];0.85[EUR][1000 genomes]
rs9356498	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs9364864	0.83[CHB][hapmap];0.85[JPT][hapmap]
rs9366034	0.90[CEU][hapmap];0.84[EUR][1000 genomes]
rs9459701	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:89 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:167025400-167034800	Enhancers	Ovary	ovary
2	chr6:167028200-167035400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr6:167029200-167039000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr6:167029400-167036800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr6:167031600-167037200	Enhancers	Placenta Amnion	Placenta Amnion
6	chr6:167032200-167034800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr6:167032200-167034800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
8	chr6:167032400-167035000	Enhancers	Fetal Heart	heart
9	chr6:167032600-167035200	Enhancers	Skeletal Muscle Male	skeletal muscle
10	chr6:167032600-167035400	Enhancers	Fetal Muscle Leg	muscle
11	chr6:167032600-167035400	Enhancers	Left Ventricle	heart
12	chr6:167032600-167035400	Enhancers	Skeletal Muscle Female	skeletal muscle
13	chr6:167032600-167035600	Enhancers	Breast Myoepithelial Primary Cells	Breast
14	chr6:167032600-167035600	Enhancers	Brain Germinal Matrix	brain
15	chr6:167032600-167038600	Enhancers	NHLF	lung
16	chr6:167032600-167039400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
17	chr6:167032800-167034800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr6:167032800-167034800	Enhancers	Colon Smooth Muscle	Colon
19	chr6:167032800-167034800	Enhancers	Rectal Smooth Muscle	rectum
20	chr6:167032800-167036600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
21	chr6:167032800-167039000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr6:167032800-167039000	Weak transcription	Primary neutrophils fromperipheralblood	blood
23	chr6:167033200-167034800	Enhancers	Adipose Nuclei	Adipose
24	chr6:167033200-167035000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
25	chr6:167033200-167035200	Enhancers	Brain Angular Gyrus	brain
26	chr6:167033200-167035400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
27	chr6:167033200-167035400	Enhancers	Fetal Muscle Trunk	muscle
28	chr6:167033200-167039000	Enhancers	HUVEC	blood vessel
29	chr6:167033400-167034800	Enhancers	Brain Cingulate Gyrus	brain
30	chr6:167033400-167035600	Enhancers	Stomach Mucosa	stomach
31	chr6:167033400-167035800	Enhancers	ES-I3 Cell Line	embryonic stem cell
32	chr6:167033600-167034800	Enhancers	Fetal Brain Male	brain
33	chr6:167033600-167034800	Enhancers	Psoas Muscle	Psoas
34	chr6:167033600-167035400	Enhancers	Brain Anterior Caudate	brain
35	chr6:167033600-167036800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
36	chr6:167033600-167039000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
37	chr6:167033800-167034800	Enhancers	Brain Hippocampus Middle	brain
38	chr6:167033800-167034800	Enhancers	Stomach Smooth Muscle	stomach
39	chr6:167033800-167035400	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
40	chr6:167034000-167034800	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
41	chr6:167034000-167034800	Genic enhancers	Fetal Stomach	stomach
42	chr6:167034200-167034800	Genic enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
43	chr6:167034200-167034800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
44	chr6:167034200-167034800	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
45	chr6:167034200-167034800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
46	chr6:167034200-167034800	Enhancers	Brain Inferior Temporal Lobe	brain
47	chr6:167034200-167034800	Genic enhancers	Right Atrium	heart
48	chr6:167034200-167035200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
49	chr6:167034200-167035400	Enhancers	H9 Cell Line	embryonic stem cell
50	chr6:167034200-167035400	Enhancers	Pancreas	Pancrea

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