Variant report

Variant	rs73906577
Chromosome Location	chr21:44880592-44880593
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:2)
LncRNA
region (count:6)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:2 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr21:44879951..44883027-chr21:44884564..44887090,3	K562	blood:
2	chr21:44879113..44881184-chr21:44906422..44908045,2	MCF-7	breast:

(count:6 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SIK1-4	chr21:44880134-44880681	XLOC_014105
2	lnc-SIK1-4	chr21:44880576-44880662	XLOC_014105
3	lnc-SIK1-4	chr21:44880134-44880681	XLOC_014105
4	lnc-SIK1-4	chr21:44880576-44880681	NONHSAT082413
5	lnc-SIK1-4	chr21:44880078-44880673	NONHSAT082414
6	lnc-SIK1-4	chr21:44880122-44880681	NONHSAT082415

No data

Variant related genes	Relation type
ENSG00000223975	Chromatin interaction
ENSG00000185186	Chromatin interaction

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs17004550	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs60478733	0.88[AFR][1000 genomes]
rs73906571	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73906575	0.88[AFR][1000 genomes]
rs73906578	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73906579	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73906581	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73906582	0.81[AFR][1000 genomes]
rs8131248	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9974901	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:17 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1056684	chr21:44539714-44886119	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	109 gene(s)	inside rSNPs	diseases
2	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
3	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
4	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
5	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
6	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
7	nsv470901	chr21:44781356-44884252	Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Weak transcription Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	90 gene(s)	inside rSNPs	diseases
8	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
9	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
10	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
11	nsv913859	chr21:44831981-44884252	Flanking Active TSS Weak transcription Active TSS Enhancers Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	78 gene(s)	inside rSNPs	diseases
12	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
13	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
14	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
15	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
16	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
17	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

No data

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr21:44859400-44883600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr21:44867000-44881000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr21:44870800-44880600	Weak transcription	HepG2	liver
4	chr21:44871000-44882800	Weak transcription	Brain Germinal Matrix	brain
5	chr21:44875600-44881600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr21:44876000-44881000	Weak transcription	Pancreas	Pancrea
7	chr21:44876400-44880800	Weak transcription	Stomach Mucosa	stomach
8	chr21:44876600-44883600	Weak transcription	NH-A	brain
9	chr21:44876800-44881200	Weak transcription	Fetal Intestine Small	intestine
10	chr21:44877000-44884200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr21:44877200-44881600	Weak transcription	A549	lung
12	chr21:44877600-44880800	Weak transcription	Right Ventricle	heart
13	chr21:44877600-44882800	Weak transcription	Brain Hippocampus Middle	brain
14	chr21:44877600-44882800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
15	chr21:44877600-44882800	Weak transcription	Psoas Muscle	Psoas
16	chr21:44877600-44883000	Weak transcription	HSMMtube	muscle
17	chr21:44877600-44883400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
18	chr21:44877600-44883800	Weak transcription	Right Atrium	heart
19	chr21:44877600-44886000	Weak transcription	Brain Anterior Caudate	brain
20	chr21:44878200-44881800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
21	chr21:44878200-44883600	Weak transcription	Brain Inferior Temporal Lobe	brain
22	chr21:44878400-44881000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr21:44878400-44881400	Weak transcription	Fetal Brain Female	brain
24	chr21:44878400-44882000	Weak transcription	Fetal Brain Male	brain
25	chr21:44878600-44883400	Weak transcription	Rectal Mucosa Donor 31	rectum
26	chr21:44878800-44882800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
27	chr21:44878800-44886400	Weak transcription	Placenta Amnion	Placenta Amnion
28	chr21:44879000-44882800	Weak transcription	Esophagus	oesophagus
29	chr21:44879000-44889200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr21:44879400-44889400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
31	chr21:44879600-44880600	Weak transcription	Fetal Muscle Leg	muscle
32	chr21:44880200-44881000	Bivalent Enhancer	Adipose Nuclei	Adipose
33	chr21:44880200-44881000	Enhancers	Left Ventricle	heart
34	chr21:44880200-44881600	Enhancers	Placenta	Placenta
35	chr21:44880200-44882200	Enhancers	Spleen	Spleen
36	chr21:44880200-44883400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
37	chr21:44880200-44883400	Enhancers	Skeletal Muscle Male	skeletal muscle
38	chr21:44880200-44884600	Enhancers	Fetal Lung	lung
39	chr21:44880200-44885000	Enhancers	Lung	lung
40	chr21:44880200-44885600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
41	chr21:44880400-44880800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
42	chr21:44880400-44884800	Enhancers	Fetal Stomach	stomach

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