Variant report

Variant	rs72901242
Chromosome Location	chr2:53945312-53945313
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:11966902..11969473-chr2:53944359..53947359,6	MCF-7	breast:

Variant related genes	Relation type
ENSG00000199347	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs17039525	0.85[ASN][1000 genomes]
rs2009144	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2692516	0.81[ASN][1000 genomes]
rs2692534	0.80[ASN][1000 genomes]
rs35487539	0.86[ASN][1000 genomes]
rs58359565	0.87[ASN][1000 genomes]
rs62137566	0.91[ASN][1000 genomes]
rs7583622	0.89[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs766075	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv916267	chr2:53747525-53955999	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv984439	chr2:53861720-53955437	Strong transcription Weak transcription ZNF genes & repeats Enhancers Genic enhancers Bivalent Enhancer Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv1003263	chr2:53863287-54055359	Strong transcription Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
4	nsv535720	chr2:53863287-54055359	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
5	nsv1011449	chr2:53894529-53947781	Weak transcription ZNF genes & repeats Strong transcription Enhancers Active TSS Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
6	nsv1009107	chr2:53896767-53946913	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
7	nsv1014949	chr2:53896767-53947781	Strong transcription ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
8	nsv1011400	chr2:53899956-53947781	Weak transcription Strong transcription Enhancers ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
9	nsv834058	chr2:53900674-54072011	Strong transcription Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
10	esv1844655	chr2:53929855-53972693	Strong transcription ZNF genes & repeats Weak transcription Genic enhancers Flanking Active TSS Enhancers Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:100 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:53898000-53957400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
2	chr2:53908600-53982200	Weak transcription	Small Intestine	intestine
3	chr2:53910000-53994000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
4	chr2:53910200-53990600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
5	chr2:53918400-53994000	Weak transcription	Fetal Heart	heart
6	chr2:53925400-53979400	Weak transcription	Psoas Muscle	Psoas
7	chr2:53927600-53960200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr2:53936600-53945400	Weak transcription	Colonic Mucosa	Colon
9	chr2:53936600-53968400	Weak transcription	Pancreas	Pancrea
10	chr2:53936600-53978600	Weak transcription	Hela-S3	cervix
11	chr2:53936800-53985400	Weak transcription	Stomach Smooth Muscle	stomach
12	chr2:53937000-53983800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
13	chr2:53937000-53994400	Weak transcription	Placenta Amnion	Placenta Amnion
14	chr2:53937200-53949400	Weak transcription	Pancreatic Islets	Pancreatic Islet
15	chr2:53937200-53954000	Weak transcription	Fetal Muscle Trunk	muscle
16	chr2:53937200-53955800	Weak transcription	Brain Substantia Nigra	brain
17	chr2:53937200-53961400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr2:53937200-53964400	Weak transcription	Aorta	Aorta
19	chr2:53937200-53966800	Weak transcription	Gastric	stomach
20	chr2:53937200-53978600	Weak transcription	NH-A	brain
21	chr2:53937200-53983600	Weak transcription	Right Ventricle	heart
22	chr2:53937200-53994200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
23	chr2:53937400-53946200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
24	chr2:53937400-53949600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr2:53937400-53954000	Weak transcription	Primary neutrophils fromperipheralblood	blood
26	chr2:53937400-53964000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
27	chr2:53937400-53979600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
28	chr2:53937400-53990200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
29	chr2:53937400-53994400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
30	chr2:53937600-53961600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
31	chr2:53937800-53957000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
32	chr2:53938000-53956400	Weak transcription	Skeletal Muscle Female	skeletal muscle
33	chr2:53938000-53961400	Weak transcription	NHEK	skin
34	chr2:53938000-53974800	Weak transcription	H1 Cell Line	embryonic stem cell
35	chr2:53938000-53974800	Weak transcription	Placenta	Placenta
36	chr2:53938200-53967000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
37	chr2:53938200-53975200	Weak transcription	Duodenum Mucosa	Duodenum
38	chr2:53938400-53963600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr2:53938400-53969400	Weak transcription	Rectal Smooth Muscle	rectum
40	chr2:53938400-53969600	Weak transcription	Esophagus	oesophagus
41	chr2:53938400-53975000	Weak transcription	Fetal Kidney	kidney
42	chr2:53938400-53982800	Weak transcription	HUES48 Cell Line	embryonic stem cell
43	chr2:53938400-53983400	Weak transcription	HSMMtube	muscle
44	chr2:53938400-53992400	Weak transcription	K562	blood
45	chr2:53938600-53954400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
46	chr2:53938600-53955200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
47	chr2:53938600-53961000	Weak transcription	HUES6 Cell Line	embryonic stem cell
48	chr2:53938600-53972000	Weak transcription	HSMM	muscle
49	chr2:53939000-53954000	Weak transcription	Lung	lung
50	chr2:53939000-53954000	Weak transcription	Sigmoid Colon	Sigmoid Colon

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