Variant report

Variant	rs3746959
Chromosome Location	chr21:45625253-45625254
allele	A/G
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

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

No.	Distal block	Cell Line	Cell type
1	chr21:45621014..45624737-chr21:45625090..45629806,7	K562	blood:
2	chr21:45620341..45625358-chr21:45718389..45721509,5	MCF-7	breast:
3	chr21:45624595..45626687-chr21:45758161..45760406,2	MCF-7	breast:
4	chr21:45590531..45598113-chr21:45625237..45630055,9	MCF-7	breast:
5	chr21:45593462..45595365-chr21:45624116..45626605,2	K562	blood:
6	chr21:45619816..45631884-chr21:45656529..45663802,30	MCF-7	breast:
7	chr21:45620311..45631567-chr21:45651002..45670824,52	MCF-7	breast:
8	chr21:45621014..45626357-chr21:45626432..45630019,5	K562	blood:

No data

Variant related genes	Relation type
ENSG00000232969	Chromatin interaction
ENSG00000160226	Chromatin interaction
ENSG00000232124	Chromatin interaction
ENSG00000237604	Chromatin interaction
ENSG00000232010	Chromatin interaction
ENSG00000267913	Chromatin interaction
ENSG00000160223	Chromatin interaction
ENSG00000232698	Chromatin interaction
ENSG00000141959	Chromatin interaction

Extended variants
information (count: 35 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs55708341	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs55736164	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs55965762	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs56132007	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs56178904	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs56299324	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs58139755	0.80[AFR][1000 genomes]
rs58911644	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs59380543	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs62228209	0.81[EUR][1000 genomes]
rs62228210	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62228216	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6518350	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6518351	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7282137	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:20 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv33817	chr21:45169412-46031810	Weak transcription Bivalent/Poised TSS Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	121 gene(s)	inside rSNPs	diseases
2	nsv913887	chr21:45344799-45670770	Flanking Active TSS Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
3	nsv1064420	chr21:45460089-45814986	Enhancers Weak transcription Active TSS Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
4	nsv544472	chr21:45460089-45814986	Weak transcription Flanking Bivalent TSS/Enh Enhancers Strong transcription Bivalent Enhancer Active TSS Genic enhancers Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
5	nsv432155	chr21:45479055-45772388	Weak transcription Enhancers Bivalent Enhancer Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
6	nsv913894	chr21:45508561-45627976	Enhancers Strong transcription Active TSS Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
7	nsv913897	chr21:45528919-45640139	Strong transcription Weak transcription Enhancers Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
8	esv1825445	chr21:45535566-45754936	Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
9	esv1817474	chr21:45540607-45773102	Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Active TSS Strong transcription 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	65 gene(s)	inside rSNPs	diseases
10	nsv533679	chr21:45551026-45768578	Enhancers Active TSS Weak transcription Bivalent Enhancer Genic enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	64 gene(s)	inside rSNPs	diseases
11	nsv913898	chr21:45555079-45941566	Weak transcription Enhancers Active TSS Strong transcription Genic enhancers Bivalent Enhancer Flanking Active TSS 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	74 gene(s)	inside rSNPs	diseases
12	nsv428042	chr21:45560437-45848190	Enhancers Active TSS Genic enhancers Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	61 gene(s)	inside rSNPs	diseases
13	nsv913900	chr21:45577102-45640139	Weak transcription Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
14	nsv913901	chr21:45615741-45665330	Weak transcription Strong transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
15	nsv913902	chr21:45615741-45709153	Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Bivalent Enhancer Enhancers Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
16	nsv587730	chr21:45619367-45627976	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
17	esv1794351	chr21:45619474-45627976	Enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
18	esv1798512	chr21:45619474-45629565	Enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
19	esv1834007	chr21:45619474-45629565	Enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
20	nsv587738	chr21:45620353-45628374	Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:85 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr21:45616800-45626600	Weak transcription	Thymus	Thymus
2	chr21:45617000-45626000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
3	chr21:45617200-45626200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
4	chr21:45617400-45626000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
5	chr21:45622000-45625600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
6	chr21:45622200-45625400	Enhancers	Breast Myoepithelial Primary Cells	Breast
7	chr21:45622200-45626200	Enhancers	Primary B cells from cord blood	blood
8	chr21:45622200-45626800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr21:45622200-45627000	Enhancers	ES-I3 Cell Line	embryonic stem cell
10	chr21:45622400-45625400	Enhancers	Primary monocytes fromperipheralblood	blood
11	chr21:45622400-45625400	Bivalent Enhancer	Fetal Muscle Trunk	muscle
12	chr21:45622400-45627000	Enhancers	Primary hematopoietic stem cells short term culture	blood
13	chr21:45622600-45626000	Enhancers	Primary B cells from peripheral blood	blood
14	chr21:45622800-45629800	Enhancers	Placenta	Placenta
15	chr21:45623000-45625400	Weak transcription	A549	lung
16	chr21:45623000-45625800	Weak transcription	Colonic Mucosa	Colon
17	chr21:45623000-45626200	Weak transcription	Rectal Smooth Muscle	rectum
18	chr21:45623000-45626800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr21:45623000-45627600	Weak transcription	Osteobl	bone
20	chr21:45623000-45629400	Enhancers	K562	blood
21	chr21:45623000-45629800	Enhancers	Fetal Muscle Leg	muscle
22	chr21:45623200-45625400	Weak transcription	NHLF	lung
23	chr21:45623200-45625800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
24	chr21:45623200-45626000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
25	chr21:45623200-45626000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
26	chr21:45623200-45626000	Enhancers	GM12878-XiMat	blood
27	chr21:45623200-45626200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
28	chr21:45623200-45626400	Weak transcription	Fetal Kidney	kidney
29	chr21:45623200-45626600	Enhancers	Brain Hippocampus Middle	brain
30	chr21:45623400-45626000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
31	chr21:45623400-45626000	Weak transcription	Fetal Intestine Small	intestine
32	chr21:45623400-45626000	Weak transcription	Lung	lung
33	chr21:45623400-45626000	Enhancers	Hela-S3	cervix
34	chr21:45623400-45626200	Enhancers	Stomach Mucosa	stomach
35	chr21:45623400-45626600	Bivalent Enhancer	Skeletal Muscle Male	skeletal muscle
36	chr21:45623400-45626600	Weak transcription	HUVEC	blood vessel
37	chr21:45623400-45627400	Weak transcription	NHDF-Ad	bronchial
38	chr21:45623400-45627800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
39	chr21:45623800-45625400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
40	chr21:45623800-45625400	Weak transcription	Placenta Amnion	Placenta Amnion
41	chr21:45624000-45625400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
42	chr21:45624000-45626000	Weak transcription	Primary T helper cells fromperipheralblood	blood
43	chr21:45624000-45627600	Enhancers	Gastric	stomach
44	chr21:45624200-45625400	Weak transcription	Fetal Thymus	thymus
45	chr21:45624200-45625600	Enhancers	Brain Substantia Nigra	brain
46	chr21:45624200-45626000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
47	chr21:45624200-45628000	Enhancers	Fetal Lung	lung
48	chr21:45624200-45628800	Enhancers	Fetal Stomach	stomach
49	chr21:45624400-45625400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
50	chr21:45624400-45626000	Weak transcription	Pancreas	Pancrea

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