Variant report

Variant	rs17004569
Chromosome Location	chr21:44907717-44907718
allele	A/C
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:15)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:15 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr21:44903235..44910338-chr21:44918042..44927375,22	MCF-7	breast:
2	chr21:44903994..44910512-chr21:44911444..44917945,16	MCF-7	breast:
3	chr21:44904650..44908076-chr21:44909449..44912203,3	K562	blood:
4	chr21:44847451..44851718-chr21:44905935..44909722,5	MCF-7	breast:
5	chr21:44907078..44910492-chr21:44929665..44933076,4	MCF-7	breast:
6	chr21:44907112..44908656-chr21:44934186..44935921,2	K562	blood:
7	chr21:44854641..44856916-chr21:44907160..44909918,2	MCF-7	breast:
8	chr21:44907357..44909116-chr21:45065139..45067092,2	MCF-7	breast:
9	chr21:44868246..44872204-chr21:44905205..44908785,4	MCF-7	breast:
10	chr21:44906417..44911362-chr21:44912971..44916519,8	MCF-7	breast:
11	chr21:44905670..44908076-chr21:44909927..44912203,2	K562	blood:
12	chr21:44879113..44881184-chr21:44906422..44908045,2	MCF-7	breast:
13	chr21:44907040..44908747-chr21:45137702..45140454,2	MCF-7	breast:
14	chr21:44752256..44754915-chr21:44905785..44907789,2	MCF-7	breast:
15	chr21:44891731..44894316-chr21:44906288..44908863,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000160209	Chromatin interaction
ENSG00000188660	Chromatin interaction

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs17004563	0.91[AFR][1000 genomes]
rs28548333	1.00[AFR][1000 genomes]
rs9976485	0.91[AFR][1000 genomes]
rs9980031	0.91[AFR][1000 genomes]
rs9980407	1.00[AFR][1000 genomes]
rs9981510	0.91[AFR][1000 genomes]
rs9983070	0.91[AFR][1000 genomes]
rs9984553	0.91[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:18 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv913831	chr21:44563995-44931821	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	118 gene(s)	inside rSNPs	diseases
2	nsv1057726	chr21:44711850-44957303	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	117 gene(s)	inside rSNPs	diseases
3	nsv544466	chr21:44711850-44957303	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	117 gene(s)	inside rSNPs	diseases
4	nsv913838	chr21:44740134-44931821	Flanking Active TSS Bivalent/Poised TSS Enhancers Weak transcription Bivalent Enhancer Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	111 gene(s)	inside rSNPs	diseases
5	nsv913839	chr21:44750200-44931821	Strong transcription Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	111 gene(s)	inside rSNPs	diseases
6	nsv913847	chr21:44792003-44931821	Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	107 gene(s)	inside rSNPs	diseases
7	nsv913849	chr21:44817248-44925334	Genic enhancers Weak transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	97 gene(s)	inside rSNPs	diseases
8	nsv913852	chr21:44829087-44925334	Enhancers Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	95 gene(s)	inside rSNPs	diseases
9	nsv913860	chr21:44831981-44925334	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	95 gene(s)	inside rSNPs	diseases
10	nsv913867	chr21:44835508-44925334	Enhancers Weak transcription Bivalent Enhancer Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	91 gene(s)	inside rSNPs	diseases
11	nsv913868	chr21:44835508-44954522	Weak transcription Enhancers Bivalent Enhancer Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	98 gene(s)	inside rSNPs	diseases
12	nsv913872	chr21:44860542-44925334	Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	51 gene(s)	inside rSNPs	diseases
13	esv1839560	chr21:44864079-44973184	Bivalent Enhancer Enhancers Weak transcription Active TSS Bivalent/Poised TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	56 gene(s)	inside rSNPs	diseases
14	nsv913873	chr21:44879869-45142427	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
15	nsv587689	chr21:44884252-44986050	Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Strong transcription Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	36 gene(s)	inside rSNPs	diseases
16	nsv1061369	chr21:44886596-44931388	Weak transcription Bivalent Enhancer Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
17	nsv544468	chr21:44886596-44931388	Weak transcription Enhancers Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
18	nsv1059264	chr21:44895863-44944515	Enhancers Bivalent/Poised TSS Flanking Active TSS Weak transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr21:44899000-44913400	Weak transcription	Right Atrium	heart
2	chr21:44900400-44913800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr21:44905600-44908000	Enhancers	A549	lung
4	chr21:44906000-44909200	Enhancers	HMEC	breast
5	chr21:44906200-44907800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr21:44906200-44912800	Weak transcription	Muscle Satellite Cultured Cells	--
7	chr21:44906400-44908000	Weak transcription	Placenta Amnion	Placenta Amnion
8	chr21:44906400-44908200	Weak transcription	Placenta	Placenta
9	chr21:44906400-44914000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
10	chr21:44906600-44913200	Weak transcription	Stomach Mucosa	stomach
11	chr21:44906600-44913800	Weak transcription	Gastric	stomach
12	chr21:44906800-44908200	Enhancers	HepG2	liver
13	chr21:44906800-44908400	Weak transcription	HSMM	muscle
14	chr21:44907200-44908200	Weak transcription	Hela-S3	cervix
15	chr21:44907400-44908600	Enhancers	Breast Myoepithelial Primary Cells	Breast
16	chr21:44907400-44909200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr21:44907600-44908000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr21:44907600-44908600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
19	chr21:44907600-44908600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
20	chr21:44907600-44908800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
21	chr21:44907600-44909000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
22	chr21:44907600-44909000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr21:44907600-44909000	Enhancers	NHEK	skin
24	chr21:44907600-44909200	Strong transcription	HSMMtube	muscle

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