Variant report

Variant	rs56824000
Chromosome Location	chr4:27096470-27096471
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:27052472..27054140-chr4:27095815..27098654,2	MCF-7	breast:

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs11946299	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12647012	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2041627	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2041628	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2075094	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs56043656	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs56917500	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs60644123	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6835095	0.80[ASN][1000 genomes]
rs6855324	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7693401	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[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	nsv4279	chr4:27056372-27101774	Bivalent/Poised TSS Weak transcription Bivalent Enhancer Enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
2	nsv1002082	chr4:27078850-27377252	Flanking Bivalent TSS/Enh Weak transcription Enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv997608	chr4:27085524-27371848	Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:27091000-27097400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr4:27091000-27104200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr4:27092000-27100800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr4:27092600-27096800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr4:27093200-27096600	Weak transcription	HUES64 Cell Line	embryonic stem cell
6	chr4:27093200-27097000	Weak transcription	HUES6 Cell Line	embryonic stem cell
7	chr4:27095000-27097800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
8	chr4:27095000-27102800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr4:27095200-27097000	Weak transcription	Lung	lung
10	chr4:27095800-27096600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
11	chr4:27095800-27098000	Enhancers	Pancreas	Pancrea
12	chr4:27096000-27097200	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
13	chr4:27096000-27097200	Enhancers	Gastric	stomach
14	chr4:27096000-27099400	Enhancers	Cortex derived primary cultured neurospheres	brain
15	chr4:27096200-27099400	Enhancers	HUES48 Cell Line	embryonic stem cell
16	chr4:27096400-27096800	Enhancers	H9 Cell Line	embryonic stem cell
17	chr4:27096400-27096800	Enhancers	Breast Myoepithelial Primary Cells	Breast
18	chr4:27096400-27096800	Enhancers	Rectal Smooth Muscle	rectum
19	chr4:27096400-27097400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
20	chr4:27096400-27098000	Weak transcription	Fetal Muscle Leg	muscle
21	chr4:27096400-27099600	Enhancers	iPS-18 Cell Line	embryonic stem cell
22	chr4:27096400-27100000	Enhancers	ES-I3 Cell Line	embryonic stem cell

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