Variant report

Variant	rs62402394
Chromosome Location	chr6:28588217-28588218
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:28583052..28585938-chr6:28586934..28589862,3	K562	blood:

Variant related genes	Relation type
ENSG00000232040	Chromatin interaction

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10738069	0.85[EUR][1000 genomes]
rs10807039	0.85[EUR][1000 genomes]
rs12662929	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16894166	0.96[ASN][1000 genomes]
rs16894169	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16894171	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16894191	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2057296	0.82[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs4711173	0.82[ASN][1000 genomes]
rs4711178	0.86[AFR][1000 genomes]
rs4713173	0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4713175	0.87[AFR][1000 genomes]
rs4947335	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs55776584	0.87[AFR][1000 genomes]
rs55963280	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs56227726	0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs58490223	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62402376	0.82[ASN][1000 genomes]
rs62402378	0.87[ASN][1000 genomes]
rs62402390	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62402392	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62402400	0.93[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs62406542	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62406553	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6456824	0.84[ASN][1000 genomes]
rs6942252	0.87[ASN][1000 genomes]
rs72850099	0.97[ASN][1000 genomes]
rs732395	0.86[EUR][1000 genomes]
rs7743296	0.94[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs7746909	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7748225	0.84[EUR][1000 genomes]
rs7760867	0.86[EUR][1000 genomes]
rs7767144	0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9295775	0.92[EUR][1000 genomes];0.97[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:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:28584400-28588800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr6:28584600-28589200	Weak transcription	Placenta	Placenta
3	chr6:28586200-28588400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr6:28586400-28588400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr6:28587000-28589000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr6:28587000-28589000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr6:28587000-28589000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr6:28587200-28588600	ZNF genes & repeats	K562	blood
9	chr6:28587600-28589000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr6:28588200-28589000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell

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