Variant report

Variant	rs3777623
Chromosome Location	chr6:45976396-45976397
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:45965967..45967545-chr6:45976025..45978546,2	K562	blood:

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs10456555	0.84[CHB][hapmap];0.88[ASN][1000 genomes]
rs10456556	1.00[CHB][hapmap];0.97[CHD][hapmap];0.83[JPT][hapmap];0.88[ASN][1000 genomes]
rs10456557	0.85[CHB][hapmap];0.88[ASN][1000 genomes]
rs10807331	0.84[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs10948268	0.84[ASW][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[LWK][hapmap];0.86[MKK][hapmap];0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs10948269	0.81[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs10948271	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];1.00[TSI][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10948272	0.87[CHB][hapmap]
rs12197310	0.83[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs12197333	0.80[AFR][1000 genomes];0.81[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs12206357	0.84[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs1338467	1.00[CHB][hapmap];0.83[JPT][hapmap];0.91[ASN][1000 genomes]
rs1338469	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs1338472	0.85[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];0.80[MEX][hapmap];0.84[MKK][hapmap];0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs1338473	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs1338474	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs1416168	0.88[ASN][1000 genomes]
rs1416169	0.88[ASN][1000 genomes]
rs1535109	0.92[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs1555216	0.85[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];0.93[GIH][hapmap];0.95[JPT][hapmap];0.88[MEX][hapmap];0.93[TSI][hapmap];0.90[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1555218	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2021683	0.88[ASN][1000 genomes]
rs2021684	0.88[ASN][1000 genomes]
rs2021687	0.82[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs2039716	1.00[CHB][hapmap];0.84[JPT][hapmap];0.88[ASN][1000 genomes]
rs2144162	0.88[ASN][1000 genomes]
rs2144163	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs34495744	0.88[ASN][1000 genomes]
rs35293483	0.91[ASN][1000 genomes]
rs3777605	1.00[CHB][hapmap];0.97[CHD][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];0.94[YRI][hapmap];0.86[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs3777606	1.00[CHB][hapmap];0.97[CHD][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs3777611	1.00[CHB][hapmap];0.97[CHD][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.80[MEX][hapmap];0.83[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs3777613	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs3777616	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.89[LWK][hapmap];0.80[MEX][hapmap];0.82[MKK][hapmap];0.84[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs3777619	0.84[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs3777620	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs3777621	0.80[AFR][1000 genomes];0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3777625	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.98[TSI][hapmap];0.89[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3777629	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56968247	0.87[ASN][1000 genomes]
rs57300420	0.83[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs59981678	0.88[ASN][1000 genomes]
rs6458484	0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs67921622	0.84[ASN][1000 genomes]
rs6930840	1.00[CHB][hapmap];0.97[CHD][hapmap];0.84[JPT][hapmap];0.87[ASN][1000 genomes]
rs7764538	0.85[CHB][hapmap];0.87[ASN][1000 genomes]
rs7771614	0.92[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7771749	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9689318	0.84[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs9689699	0.84[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs9689703	0.84[AMR][1000 genomes];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 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	nsv428482	chr6:45926644-46050182	Genic enhancers Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv885867	chr6:45936223-45982976	Active TSS Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Weak transcription Bivalent Enhancer Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv1025846	chr6:45955173-46047269	Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:45957000-45977400	Weak transcription	Fetal Intestine Large	intestine
2	chr6:45966200-45978200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr6:45967800-45976600	Enhancers	Skeletal Muscle Male	skeletal muscle
4	chr6:45968000-45979400	Enhancers	Right Ventricle	heart
5	chr6:45969000-45978000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
6	chr6:45969200-45978400	Enhancers	Skeletal Muscle Female	skeletal muscle
7	chr6:45969400-45978800	Weak transcription	Spleen	Spleen
8	chr6:45970200-45977400	Enhancers	Left Ventricle	heart
9	chr6:45970600-45978200	Weak transcription	Rectal Mucosa Donor 29	rectum
10	chr6:45971000-45977600	Weak transcription	Rectal Mucosa Donor 31	rectum
11	chr6:45973200-45981600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr6:45974400-45976800	Enhancers	Right Atrium	heart
13	chr6:45975600-45977000	Weak transcription	Fetal Heart	heart
14	chr6:45975600-45978000	Weak transcription	Fetal Intestine Small	intestine
15	chr6:45975800-45976600	Enhancers	Sigmoid Colon	Sigmoid Colon
16	chr6:45976000-45976400	ZNF genes & repeats	Lung	lung
17	chr6:45976000-45981400	Enhancers	Psoas Muscle	Psoas

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