Variant report

Variant	rs6908940
Chromosome Location	chr6:54668796-54668797
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	chr6:54666819..54668967-chr6:54700012..54702691,2	MCF-7	breast:
2	chr6:54667811..54670876-chr6:54711137..54713039,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000168143	Chromatin interaction

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs10223546	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10223849	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10456688	0.84[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10948852	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10948853	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12196314	0.84[ASN][1000 genomes]
rs12199827	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12201892	0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12202062	0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12205372	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12216186	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13195757	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1567164	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1827513	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4712071	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4715480	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4715481	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4715482	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4715484	0.92[AFR][1000 genomes];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs58988305	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62412605	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6918226	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6922162	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6922543	0.92[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6939992	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs72957572	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7452200	0.85[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7760490	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9296768	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9464138	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9464139	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9474997	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9475001	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9475004	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9475005	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9475006	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9475011	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9475013	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9475017	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9475021	0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9475029	0.81[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv885900	chr6:54517968-54852462	Active TSS Bivalent Enhancer Enhancers Weak transcription Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:54666200-54669200	Enhancers	Fetal Intestine Large	intestine
2	chr6:54666600-54669400	Weak transcription	HSMMtube	muscle
3	chr6:54667200-54668800	Enhancers	HUES48 Cell Line	embryonic stem cell
4	chr6:54667200-54668800	Enhancers	iPS-20b Cell Line	embryonic stem cell
5	chr6:54667800-54669000	Enhancers	iPS-15b Cell Line	embryonic stem cell
6	chr6:54667800-54670800	Enhancers	Fetal Intestine Small	intestine
7	chr6:54668200-54668800	Enhancers	ES-I3 Cell Line	embryonic stem cell
8	chr6:54668200-54669400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr6:54668200-54670200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
10	chr6:54668200-54670400	Weak transcription	H1 Cell Line	embryonic stem cell
11	chr6:54668200-54670400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
12	chr6:54668400-54668800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr6:54668400-54669400	Weak transcription	Fetal Heart	heart
14	chr6:54668400-54669400	Weak transcription	NHLF	lung
15	chr6:54668400-54670000	Weak transcription	HUES64 Cell Line	embryonic stem cell
16	chr6:54668400-54670000	Weak transcription	Hela-S3	cervix
17	chr6:54668400-54670200	Weak transcription	Placenta Amnion	Placenta Amnion
18	chr6:54668600-54668800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
19	chr6:54668600-54669000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

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