Variant report

Variant	rs3778376
Chromosome Location	chr6:167031291-167031292
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10223606	1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs12333057	1.00[CHD][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs12663354	0.97[ASN][1000 genomes]
rs12664453	1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs12664861	0.90[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs12664885	0.95[ASN][1000 genomes]
rs3778374	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[YRI][hapmap];1.00[ASN][1000 genomes]
rs3799569	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs6909203	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs6932695	1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs763191	1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs7760180	1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs9457191	0.80[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs9459702	1.00[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs9459704	1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs9459705	1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs9459707	1.00[JPT][hapmap];0.85[ASN][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:90 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:167012400-167034400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr6:167016000-167034400	Weak transcription	Aorta	Aorta
3	chr6:167016600-167032800	Weak transcription	Colon Smooth Muscle	Colon
4	chr6:167017200-167032200	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr6:167023600-167033200	Weak transcription	Primary B cells from cord blood	blood
6	chr6:167023800-167031600	Weak transcription	Fetal Brain Female	brain
7	chr6:167024000-167032400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
8	chr6:167024000-167033600	Weak transcription	Fetal Brain Male	brain
9	chr6:167024200-167032800	Weak transcription	HUES64 Cell Line	embryonic stem cell
10	chr6:167024800-167031800	Enhancers	Skeletal Muscle Female	skeletal muscle
11	chr6:167025400-167034800	Enhancers	Ovary	ovary
12	chr6:167025600-167031400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr6:167025600-167034200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
14	chr6:167026200-167031800	Weak transcription	Duodenum Mucosa	Duodenum
15	chr6:167026400-167033000	Weak transcription	Fetal Lung	lung
16	chr6:167027200-167031800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
17	chr6:167028200-167035400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
18	chr6:167028600-167031600	Weak transcription	Fetal Intestine Large	intestine
19	chr6:167028600-167034600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
20	chr6:167028800-167031600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
21	chr6:167028800-167032000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr6:167028800-167033400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
23	chr6:167028800-167033400	Weak transcription	Stomach Mucosa	stomach
24	chr6:167029000-167031600	Weak transcription	NHEK	skin
25	chr6:167029000-167032200	Weak transcription	HSMMtube	muscle
26	chr6:167029200-167032200	Strong transcription	Fetal Stomach	stomach
27	chr6:167029200-167032400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
28	chr6:167029200-167032800	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
29	chr6:167029200-167032800	Genic enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
30	chr6:167029200-167033000	Weak transcription	HUES48 Cell Line	embryonic stem cell
31	chr6:167029200-167033400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
32	chr6:167029200-167034400	Weak transcription	Colonic Mucosa	Colon
33	chr6:167029200-167039000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
34	chr6:167029400-167031400	Weak transcription	HSMM	muscle
35	chr6:167029400-167031600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
36	chr6:167029400-167031800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
37	chr6:167029400-167031800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
38	chr6:167029400-167031800	Weak transcription	Sigmoid Colon	Sigmoid Colon
39	chr6:167029400-167032000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
40	chr6:167029400-167032200	Weak transcription	H1 Cell Line	embryonic stem cell
41	chr6:167029400-167036800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr6:167029600-167031600	Weak transcription	HUES6 Cell Line	embryonic stem cell
43	chr6:167029600-167031600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
44	chr6:167029600-167031600	Weak transcription	HMEC	breast
45	chr6:167029600-167032200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
46	chr6:167029600-167034200	Weak transcription	Brain Substantia Nigra	brain
47	chr6:167029800-167031400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
48	chr6:167029800-167031800	Strong transcription	Muscle Satellite Cultured Cells	--
49	chr6:167029800-167032000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
50	chr6:167029800-167032800	Weak transcription	Rectal Smooth Muscle	rectum

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