Variant report

Variant	rs12662929
Chromosome Location	chr6:28622484-28622485
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:28585278..28587273-chr6:28621824..28624367,2	K562	blood:
2	chr6:28601160..28604058-chr6:28622175..28624824,2	K562	blood:
3	chr6:28613173..28620583-chr6:28620759..28628573,15	K562	blood:

Variant related genes	Relation type
ENSG00000271440	Chromatin interaction
ENSG00000272278	Chromatin interaction
ENSG00000235570	Chromatin interaction

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10738069	0.87[EUR][1000 genomes]
rs10807035	0.81[EUR][1000 genomes]
rs10807039	0.87[EUR][1000 genomes]
rs16894166	0.94[ASN][1000 genomes]
rs16894169	0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16894171	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16894191	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2057296	0.84[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs4711178	0.87[AFR][1000 genomes]
rs4713173	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4713175	0.89[AFR][1000 genomes]
rs4947335	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs55776584	0.89[AFR][1000 genomes]
rs55963280	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs56227726	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs58490223	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62402378	0.85[ASN][1000 genomes]
rs62402390	0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs62402392	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62402394	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62402400	0.94[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs62406542	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62406553	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6456824	0.82[ASN][1000 genomes]
rs6942252	0.85[ASN][1000 genomes]
rs72850099	0.94[ASN][1000 genomes]
rs732395	0.88[EUR][1000 genomes]
rs7743296	0.96[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs7746909	0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7748225	0.86[EUR][1000 genomes]
rs7760867	0.88[EUR][1000 genomes]
rs7767144	0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9295775	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1020689	chr6:28449137-28635171	Flanking Active TSS Active TSS Enhancers Bivalent/Poised TSS Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases
2	nsv830621	chr6:28473951-28675709	Bivalent/Poised TSS Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
3	nsv1031671	chr6:28575172-28678126	Active TSS Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:28616800-28625200	Weak transcription	Colonic Mucosa	Colon
2	chr6:28617200-28624600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr6:28617200-28624800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr6:28622000-28624800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell

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