Variant report

Variant	rs61732090
Chromosome Location	chr3:24003590-24003591
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:4)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:4 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr3:24003254-24004482	HepG2	liver:	n/a	n/a
2	MAZ	chr3:24003581-24003696	Hela-S3	cervix:	n/a	n/a
3	POLR2A	chr3:24003321-24004080	Hela-S3	cervix:	n/a	n/a
4	POLR2A	chr3:24003477-24004366	A549	lung:	n/a	n/a

No data

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

No.	Distal block	Cell Line	Cell type
1	chr3:23960922..23962761-chr3:24002838..24004607,2	K562	blood:
2	chr3:23988335..23991846-chr3:24002543..24006084,3	K562	blood:
3	chr3:23961452..23965156-chr3:23999587..24004253,5	MCF-7	breast:
4	chr3:23985538..23993367-chr3:23993730..24003801,19	MCF-7	breast:
5	chr3:23957666..23960056-chr3:24002459..24005519,4	MCF-7	breast:
6	chr3:23987978..23989944-chr3:24002378..24005441,3	K562	blood:
7	chr3:23967304..23969953-chr3:24001242..24004073,2	K562	blood:
8	chr3:23967043..23969562-chr3:24002136..24003656,2	MCF-7	breast:

No data

Variant related genes	Relation type
NR1D2	TF binding region
ENSG00000197885	Chromatin interaction
ENSG00000174748	Chromatin interaction
ENSG00000174738	Chromatin interaction

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs72627026	1.00[AFR][1000 genomes]
rs72627027	1.00[AFR][1000 genomes]
rs72627050	1.00[AFR][1000 genomes]
rs72627053	1.00[AFR][1000 genomes]
rs72627055	1.00[AFR][1000 genomes]
rs72627056	1.00[AFR][1000 genomes]
rs72627057	1.00[AFR][1000 genomes]
rs72627059	1.00[AFR][1000 genomes]
rs72627060	1.00[AFR][1000 genomes]
rs72627061	1.00[AFR][1000 genomes]
rs72627062	1.00[AFR][1000 genomes]
rs72627063	1.00[AFR][1000 genomes]
rs72627065	1.00[AFR][1000 genomes]
rs72627068	1.00[AFR][1000 genomes]
rs72627069	1.00[AFR][1000 genomes]
rs72627070	1.00[AFR][1000 genomes]
rs72627071	1.00[AFR][1000 genomes]
rs72627072	1.00[AFR][1000 genomes]
rs72627073	1.00[AFR][1000 genomes]
rs72627074	1.00[AFR][1000 genomes]
rs72627075	1.00[AFR][1000 genomes]
rs72627076	1.00[AFR][1000 genomes]
rs72627077	1.00[AFR][1000 genomes]
rs72627078	1.00[AFR][1000 genomes]
rs72627079	1.00[AFR][1000 genomes]
rs72627080	1.00[AFR][1000 genomes]
rs72627082	1.00[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv533980	chr3:23445901-24311972	ZNF genes & repeats Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
2	nsv834638	chr3:23963860-24117191	Enhancers Weak transcription Active TSS Genic enhancers Strong transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:23988200-24003600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr3:23989200-24007400	Weak transcription	Fetal Brain Female	brain
3	chr3:23989200-24018000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr3:23989200-24020600	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr3:23989200-24033200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
6	chr3:23989600-24003600	Weak transcription	Colonic Mucosa	Colon
7	chr3:23989800-24017800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr3:23992000-24007400	Weak transcription	Thymus	Thymus
9	chr3:23992400-24017400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
10	chr3:23993600-24009400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
11	chr3:23993600-24017800	Weak transcription	Brain Germinal Matrix	brain
12	chr3:23994000-24022800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
13	chr3:23996000-24012600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
14	chr3:23996200-24004800	Strong transcription	HUES64 Cell Line	embryonic stem cell
15	chr3:23996200-24009400	Weak transcription	Psoas Muscle	Psoas
16	chr3:23996200-24011200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr3:23996200-24021200	Weak transcription	Small Intestine	intestine
18	chr3:23996400-24006200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
19	chr3:23997200-24012200	Strong transcription	Liver	Liver
20	chr3:23997400-24007400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
21	chr3:23998200-24003600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
22	chr3:23999000-24007400	Strong transcription	Adipose Nuclei	Adipose
23	chr3:23999200-24011600	Strong transcription	HUES6 Cell Line	embryonic stem cell
24	chr3:23999400-24005000	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
25	chr3:23999400-24005000	Strong transcription	Fetal Lung	lung
26	chr3:23999800-24019600	Strong transcription	Primary T helper cells fromperipheralblood	blood
27	chr3:24000000-24007400	Weak transcription	Right Atrium	heart
28	chr3:24000000-24020400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
29	chr3:24000400-24004600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
30	chr3:24000600-24012200	Strong transcription	Primary T helper cells PMA-I stimulated	--
31	chr3:24000800-24004200	Strong transcription	Primary B cells from cord blood	blood
32	chr3:24000800-24010400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
33	chr3:24000800-24019600	Strong transcription	Primary T cells fromperipheralblood	blood
34	chr3:24000800-24021800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
35	chr3:24001000-24004400	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
36	chr3:24001000-24011000	Strong transcription	HUES48 Cell Line	embryonic stem cell
37	chr3:24001200-24004000	Strong transcription	Left Ventricle	heart
38	chr3:24001200-24004200	Strong transcription	Duodenum Mucosa	Duodenum
39	chr3:24001200-24004400	Strong transcription	Skeletal Muscle Male	skeletal muscle
40	chr3:24001200-24007200	Weak transcription	Fetal Heart	heart
41	chr3:24001400-24003600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
42	chr3:24001400-24004200	Strong transcription	Osteobl	bone
43	chr3:24001400-24004400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
44	chr3:24001400-24004400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
45	chr3:24001400-24004600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
46	chr3:24001400-24004800	Strong transcription	Duodenum Smooth Muscle	Duodenum
47	chr3:24001400-24005000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
48	chr3:24001400-24007400	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
49	chr3:24001400-24007600	Strong transcription	Stomach Smooth Muscle	stomach
50	chr3:24001400-24008000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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