Variant report

Variant	rs28446860
Chromosome Location	chr21:40980566-40980567
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	chr21:40980416..40982821-chr21:40984581..40986944,3	MCF-7	breast:
2	chr21:40979099..40981850-chr21:40982315..40985666,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000184809	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs10483056	1.00[ASN][1000 genomes]
rs28533667	0.88[EUR][1000 genomes]
rs61164421	1.00[ASN][1000 genomes]
rs73904080	1.00[ASN][1000 genomes]
rs73904081	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1059868	chr21:40711535-41043291	Active TSS Enhancers Genic enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
2	nsv1061454	chr21:40757973-41265404	Strong transcription Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
3	nsv1057956	chr21:40907707-41393396	Enhancers Strong transcription ZNF genes & repeats Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
4	nsv544444	chr21:40907707-41393396	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr21:40970200-40982400	Weak transcription	Rectal Mucosa Donor 31	rectum
2	chr21:40970400-40981800	Weak transcription	Pancreas	Pancrea
3	chr21:40970800-40984600	Weak transcription	Right Atrium	heart
4	chr21:40973400-40982400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
5	chr21:40974000-40982200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
6	chr21:40974200-40980600	Weak transcription	HUES6 Cell Line	embryonic stem cell
7	chr21:40974400-40980600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr21:40974400-40982200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr21:40974400-40982400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr21:40974400-40982600	Weak transcription	Placenta Amnion	Placenta Amnion
11	chr21:40975600-40981400	Weak transcription	Duodenum Mucosa	Duodenum
12	chr21:40976400-40981200	Strong transcription	H1 Cell Line	embryonic stem cell
13	chr21:40976800-40983200	Weak transcription	Brain Anterior Caudate	brain
14	chr21:40977200-40980800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
15	chr21:40977400-40982200	Weak transcription	HUES48 Cell Line	embryonic stem cell
16	chr21:40978200-40981000	Weak transcription	H9 Cell Line	embryonic stem cell
17	chr21:40978200-40982000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
18	chr21:40979800-40980600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
19	chr21:40980000-40981400	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
20	chr21:40980400-40980800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
21	chr21:40980400-40981000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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