Variant report

Variant	rs3777562
Chromosome Location	chr6:45895815-45895816
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs1128514	1.00[CEU][hapmap];1.00[TSI][hapmap];0.84[EUR][1000 genomes]
rs16874013	1.00[MEX][hapmap]
rs16874029	1.00[MEX][hapmap]
rs2297834	0.85[CEU][hapmap];1.00[TSI][hapmap];0.84[EUR][1000 genomes]
rs34208595	0.84[EUR][1000 genomes]
rs34522587	0.86[EUR][1000 genomes]
rs34866782	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs34943199	0.81[ASN][1000 genomes]
rs35143374	0.81[EUR][1000 genomes]
rs35448663	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs35489689	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs35570290	0.81[ASN][1000 genomes]
rs3798264	0.81[ASN][1000 genomes]
rs3814071	1.00[CEU][hapmap];1.00[TSI][hapmap];0.84[EUR][1000 genomes]
rs4714888	1.00[CEU][hapmap];1.00[TSI][hapmap];0.84[EUR][1000 genomes]
rs67715157	0.86[EUR][1000 genomes]
rs67919193	0.84[EUR][1000 genomes]
rs6911790	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6916183	0.84[CHB][hapmap];0.92[ASN][1000 genomes]
rs6921488	1.00[MEX][hapmap]
rs6935445	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6937735	0.84[EUR][1000 genomes]
rs7746554	0.84[EUR][1000 genomes]
rs7746593	0.84[EUR][1000 genomes]
rs9296473	0.84[EUR][1000 genomes]
rs9969032	0.81[EUR][1000 genomes]
rs9969070	0.84[EUR][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	nsv532024	chr6:45475088-45982640	Strong transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv1021917	chr6:45879064-45898314	Enhancers Weak transcription Strong transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:45866600-45898400	Weak transcription	Colonic Mucosa	Colon
2	chr6:45881200-45908000	Weak transcription	Duodenum Mucosa	Duodenum
3	chr6:45882400-45898400	Weak transcription	Fetal Intestine Large	intestine
4	chr6:45886800-45910600	Weak transcription	Psoas Muscle	Psoas
5	chr6:45887400-45896600	Weak transcription	Fetal Intestine Small	intestine
6	chr6:45889200-45897200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr6:45890000-45898000	Weak transcription	Rectal Mucosa Donor 31	rectum
8	chr6:45890000-45898000	Weak transcription	Right Atrium	heart
9	chr6:45890000-45898000	Weak transcription	Sigmoid Colon	Sigmoid Colon
10	chr6:45890600-45901600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr6:45891000-45898400	Weak transcription	Fetal Kidney	kidney
12	chr6:45891400-45898000	Weak transcription	Fetal Heart	heart
13	chr6:45891600-45898400	Weak transcription	Rectal Mucosa Donor 29	rectum
14	chr6:45891800-45896400	Weak transcription	Right Ventricle	heart
15	chr6:45891800-45896600	Weak transcription	Skeletal Muscle Male	skeletal muscle
16	chr6:45892200-45897400	Weak transcription	Skeletal Muscle Female	skeletal muscle
17	chr6:45892200-45897400	Weak transcription	Osteobl	bone
18	chr6:45892800-45897000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr6:45892800-45897200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr6:45893400-45897400	Weak transcription	Left Ventricle	heart
21	chr6:45894400-45897200	Enhancers	HUES64 Cell Line	embryonic stem cell
22	chr6:45894400-45898600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
23	chr6:45894600-45896000	Enhancers	iPS-20b Cell Line	embryonic stem cell
24	chr6:45894600-45896200	Enhancers	H1 Cell Line	embryonic stem cell
25	chr6:45894600-45896800	Enhancers	iPS-15b Cell Line	embryonic stem cell
26	chr6:45894600-45897200	Enhancers	ES-I3 Cell Line	embryonic stem cell
27	chr6:45894600-45897400	Enhancers	HUES48 Cell Line	embryonic stem cell
28	chr6:45894800-45896000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
29	chr6:45894800-45896200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
30	chr6:45894800-45898400	Enhancers	HUES6 Cell Line	embryonic stem cell
31	chr6:45895000-45896200	Enhancers	ES-WA7 Cell Line	embryonic stem cell
32	chr6:45895000-45896200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr6:45895200-45897400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
34	chr6:45895400-45896000	Weak transcription	Fetal Stomach	stomach
35	chr6:45895400-45910800	Weak transcription	Placenta	Placenta
36	chr6:45895600-45898800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
37	chr6:45895800-45896800	Enhancers	H9 Cell Line	embryonic stem cell
38	chr6:45895800-45897000	Bivalent Enhancer	iPS-18 Cell Line	embryonic stem cell

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