Variant report

Variant	rs1963490
Chromosome Location	chr1:45133064-45133065
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:45129459..45133331-chr1:45136805..45140386,3	K562	blood:
2	chr1:45132598..45134924-chr1:45195191..45197031,2	MCF-7	breast:
3	chr1:45132253..45135178-chr1:45184644..45187052,3	K562	blood:

Variant related genes	Relation type
ENSG00000198520	Chromatin interaction
ENSG00000200169	Chromatin interaction
ENSG00000126106	Chromatin interaction

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs11581074	0.95[ASN][1000 genomes]
rs11582807	0.95[ASN][1000 genomes]
rs12022097	0.84[ASN][1000 genomes]
rs1276066	0.84[AMR][1000 genomes]
rs34948326	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3850853	0.87[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs4660818	0.95[ASN][1000 genomes]
rs4660821	0.95[ASN][1000 genomes]
rs4660822	0.95[ASN][1000 genomes]
rs6429544	0.88[EUR][1000 genomes]
rs6668870	0.95[ASN][1000 genomes]
rs6683133	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7538419	0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7539607	0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv533037	chr1:44361728-45333408	Weak transcription Strong transcription Flanking Active TSS Active TSS Enhancers Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	469 gene(s)	inside rSNPs	diseases
2	nsv1004861	chr1:44843654-45210176	Flanking Active TSS Genic enhancers Enhancers Flanking Bivalent TSS/Enh Weak transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Active TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	346 gene(s)	inside rSNPs	diseases
3	nsv534940	chr1:44843654-45210176	Flanking Active TSS Enhancers Bivalent Enhancer Bivalent/Poised TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	346 gene(s)	inside rSNPs	diseases
4	nsv998476	chr1:45001278-45311757	Flanking Active TSS Weak transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	426 gene(s)	inside rSNPs	diseases
5	nsv534941	chr1:45001278-45311757	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	426 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:60 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:45104000-45138200	Weak transcription	Fetal Brain Male	brain
2	chr1:45115200-45137800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr1:45115800-45138000	Weak transcription	NHDF-Ad	bronchial
4	chr1:45117200-45137800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
5	chr1:45117200-45138600	Weak transcription	Aorta	Aorta
6	chr1:45117400-45138000	Weak transcription	Left Ventricle	heart
7	chr1:45118600-45138600	Weak transcription	Colon Smooth Muscle	Colon
8	chr1:45119200-45139200	Weak transcription	H1 Cell Line	embryonic stem cell
9	chr1:45119800-45138000	Weak transcription	Primary T cells from cord blood	blood
10	chr1:45120800-45134200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr1:45121000-45137600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr1:45121000-45138600	Weak transcription	Gastric	stomach
13	chr1:45125400-45137800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr1:45125400-45138000	Weak transcription	Fetal Brain Female	brain
15	chr1:45126200-45136800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
16	chr1:45126200-45137600	Weak transcription	Adipose Nuclei	Adipose
17	chr1:45126200-45137800	Weak transcription	Stomach Smooth Muscle	stomach
18	chr1:45126400-45133400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
19	chr1:45126400-45137600	Weak transcription	Fetal Stomach	stomach
20	chr1:45126400-45137800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
21	chr1:45126400-45138200	Weak transcription	Fetal Lung	lung
22	chr1:45127800-45138400	Weak transcription	Small Intestine	intestine
23	chr1:45128000-45136400	Weak transcription	Brain Hippocampus Middle	brain
24	chr1:45128200-45136000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr1:45128200-45137000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
26	chr1:45128200-45137600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
27	chr1:45128400-45136800	Weak transcription	Placenta	Placenta
28	chr1:45128400-45137600	Weak transcription	Right Atrium	heart
29	chr1:45128400-45137800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
30	chr1:45128600-45134200	Weak transcription	Fetal Intestine Small	intestine
31	chr1:45128600-45135800	Weak transcription	Primary hematopoietic stem cells	blood
32	chr1:45128600-45136800	Weak transcription	Brain Anterior Caudate	brain
33	chr1:45128600-45137000	Weak transcription	Brain Inferior Temporal Lobe	brain
34	chr1:45128600-45137800	Weak transcription	Rectal Mucosa Donor 29	rectum
35	chr1:45128600-45138000	Weak transcription	Ovary	ovary
36	chr1:45128800-45137600	Weak transcription	Liver	Liver
37	chr1:45128800-45137600	Weak transcription	Duodenum Mucosa	Duodenum
38	chr1:45128800-45138000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
39	chr1:45129000-45135000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
40	chr1:45129000-45136000	Weak transcription	Fetal Muscle Leg	muscle
41	chr1:45129400-45138200	Weak transcription	Fetal Intestine Large	intestine
42	chr1:45129600-45138000	Weak transcription	Rectal Mucosa Donor 31	rectum
43	chr1:45129600-45138000	Weak transcription	HepG2	liver
44	chr1:45130600-45137600	Weak transcription	Fetal Muscle Trunk	muscle
45	chr1:45130800-45136600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
46	chr1:45130800-45137000	Weak transcription	Lung	lung
47	chr1:45130800-45138000	Weak transcription	Sigmoid Colon	Sigmoid Colon
48	chr1:45130800-45139000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
49	chr1:45130800-45139000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
50	chr1:45131000-45136000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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