Variant report

Variant	rs1884938
Chromosome Location	chr6:28624124-28624125
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:28614745..28616729-chr6:28622760..28625663,2	MCF-7	breast:
2	chr6:28609862..28611937-chr6:28624089..28625940,2	K562	blood:
3	chr6:28585278..28587273-chr6:28621824..28624367,2	K562	blood:
4	chr6:28622745..28624261-chr6:28661466..28664275,2	K562	blood:
5	chr6:28601160..28604058-chr6:28622175..28624824,2	K562	blood:
6	chr6:28582481..28584280-chr6:28624035..28626997,3	K562	blood:
7	chr6:28613173..28620583-chr6:28620759..28628573,15	K562	blood:
8	chr6:28623399..28625951-chr6:28639865..28642751,2	MCF-7	breast:

No data

No data

No data

Variant related genes	Relation type
ENSG00000235570	Chromatin interaction
ENSG00000272278	Chromatin interaction
ENSG00000271440	Chromatin interaction
ENSG00000232040	Chromatin interaction

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs10447392	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28742017	1.00[AMR][1000 genomes]
rs3999023	0.89[AFR][1000 genomes]
rs409029	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs443924	0.85[AFR][1000 genomes]
rs452768	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6456829	0.89[AFR][1000 genomes]
rs6456832	0.83[AFR][1000 genomes]
rs6899496	1.00[AMR][1000 genomes]
rs6899709	1.00[AMR][1000 genomes]
rs7738536	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9461467	1.00[AMR][1000 genomes]
rs9468382	1.00[AMR][1000 genomes]
rs9468386	1.00[AMR][1000 genomes]
rs9468389	1.00[AMR][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:5 , 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
5	chr6:28623400-28624600	Weak transcription	HUES6 Cell Line	embryonic stem cell

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Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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