Variant report

Variant	rs55963280
Chromosome Location	chr6:28581728-28581729
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:28579345..28581830-chr6:28688286..28691469,3	K562	blood:
2	chr6:27803792..27806128-chr6:28581594..28583171,2	K562	blood:
3	chr6:28579298..28581830-chr6:28687615..28690190,2	K562	blood:
4	chr6:28579846..28585618-chr6:28609150..28616432,10	K562	blood:

Variant related genes	Relation type
ENSG00000184348	Chromatin interaction
ENSG00000272278	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	0.84[EUR][1000 genomes]
rs10807039	0.84[EUR][1000 genomes]
rs12662929	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16894166	0.97[ASN][1000 genomes]
rs16894169	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16894171	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16894191	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2057296	0.81[AFR][1000 genomes]
rs4711173	0.83[ASN][1000 genomes]
rs4711178	0.84[AFR][1000 genomes]
rs4713173	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4713175	0.86[AFR][1000 genomes]
rs4947335	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs55776584	0.86[AFR][1000 genomes]
rs56227726	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58490223	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62402376	0.83[ASN][1000 genomes]
rs62402378	0.88[ASN][1000 genomes]
rs62402390	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62402392	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62402394	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62402400	0.91[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs62406542	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62406553	0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6456824	0.85[ASN][1000 genomes]
rs6942252	0.89[ASN][1000 genomes]
rs72850099	0.98[ASN][1000 genomes]
rs732395	0.84[EUR][1000 genomes]
rs7743296	0.93[AFR][1000 genomes]
rs7746909	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7748225	0.82[EUR][1000 genomes]
rs7760867	0.84[EUR][1000 genomes]
rs7767144	0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9295775	0.91[EUR][1000 genomes];0.99[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:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:28580400-28582800	Active TSS	K562	blood
2	chr6:28580800-28585400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

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