Variant report

Variant	rs1978974
Chromosome Location	chr2:55330129-55330130
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:55276735..55279463-chr2:55327258..55330571,3	K562	blood:
2	chr2:55322759..55325369-chr2:55329915..55332847,3	MCF-7	breast:
3	chr2:55327279..55331330-chr2:55337574..55341174,5	K562	blood:
4	chr2:55326388..55330538-chr2:55335061..55337994,3	K562	blood:
5	chr2:55317970..55321435-chr2:55328777..55332297,3	K562	blood:

Variant related genes	Relation type
ENSG00000115310	Chromatin interaction
ENSG00000266376	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs2902655	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2920875	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2968811	0.86[EUR][1000 genomes];0.96[ASN][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	nsv1006172	chr2:55322883-55340812	Weak transcription Enhancers Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	esv2760568	chr2:55322895-55330350	Weak transcription Enhancers Flanking Active TSS Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	esv2763510	chr2:55322895-55330350	Enhancers Flanking Active TSS Weak transcription Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	esv3345871	chr2:55323717-55336931	Enhancers Weak transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	esv3457756	chr2:55323755-55336917	Weak transcription Enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
6	esv3457755	chr2:55323788-55336864	Enhancers Flanking Active TSS Weak transcription Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
7	esv3457757	chr2:55323788-55336864	Weak transcription Enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
8	esv9883	chr2:55323841-55336774	Enhancers Weak transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
9	nsv999212	chr2:55324276-55340812	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
10	nsv1004503	chr2:55324276-55343705	Enhancers Flanking Active TSS Weak transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
11	nsv997458	chr2:55324276-55344326	Enhancers Weak transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
12	nsv1013316	chr2:55324276-55345262	Flanking Active TSS Enhancers Weak transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
13	esv2421886	chr2:55324288-55335045	Enhancers Flanking Active TSS Weak transcription Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
14	esv3693301	chr2:55324960-55335045	Weak transcription Enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
15	nsv517331	chr2:55324960-55335045	Enhancers Weak transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
16	nsv817951	chr2:55324960-55335045	Weak transcription Enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
17	nsv438350	chr2:55327091-55333235	Enhancers Weak transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:53 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:55321600-55339400	Weak transcription	Thymus	Thymus
2	chr2:55321800-55336400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr2:55325200-55340400	Weak transcription	Gastric	stomach
4	chr2:55325400-55330400	Weak transcription	Fetal Intestine Small	intestine
5	chr2:55326800-55330600	Enhancers	Stomach Smooth Muscle	stomach
6	chr2:55326800-55334600	Weak transcription	Brain Angular Gyrus	brain
7	chr2:55327000-55330800	Enhancers	Colon Smooth Muscle	Colon
8	chr2:55327600-55330400	Weak transcription	HepG2	liver
9	chr2:55327800-55330200	Enhancers	HSMMtube	muscle
10	chr2:55327800-55330200	Enhancers	Osteobl	bone
11	chr2:55327800-55331000	Enhancers	HUVEC	blood vessel
12	chr2:55327800-55334600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr2:55327800-55335400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
14	chr2:55327800-55338600	Weak transcription	Lung	lung
15	chr2:55327800-55338600	Weak transcription	Rectal Mucosa Donor 31	rectum
16	chr2:55328000-55330600	Enhancers	Adipose Nuclei	Adipose
17	chr2:55328000-55330800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr2:55328000-55331200	Enhancers	Dnd41	blood
19	chr2:55328000-55333200	Weak transcription	Fetal Heart	heart
20	chr2:55328000-55334200	Weak transcription	Brain Substantia Nigra	brain
21	chr2:55328800-55331200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
22	chr2:55328800-55334200	Weak transcription	Duodenum Smooth Muscle	Duodenum
23	chr2:55329000-55338600	Weak transcription	Skeletal Muscle Male	skeletal muscle
24	chr2:55329200-55331000	Enhancers	Primary hematopoietic stem cells	blood
25	chr2:55329400-55330200	Enhancers	Primary neutrophils fromperipheralblood	blood
26	chr2:55329400-55330800	Enhancers	Monocytes-CD14+_RO01746	blood
27	chr2:55329400-55331200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
28	chr2:55329600-55330200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
29	chr2:55329600-55330200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
30	chr2:55329600-55330200	Enhancers	Primary monocytes fromperipheralblood	blood
31	chr2:55329600-55330600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
32	chr2:55329600-55330600	Enhancers	Aorta	Aorta
33	chr2:55329600-55330800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
34	chr2:55329600-55330800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
35	chr2:55329600-55330800	Enhancers	NHDF-Ad	bronchial
36	chr2:55329600-55331800	Enhancers	Fetal Thymus	thymus
37	chr2:55329600-55332800	Weak transcription	A549	lung
38	chr2:55329600-55332800	Weak transcription	NHLF	lung
39	chr2:55329600-55333400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
40	chr2:55329600-55342600	Weak transcription	NHEK	skin
41	chr2:55329800-55330200	Enhancers	Fetal Muscle Leg	muscle
42	chr2:55329800-55330400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
43	chr2:55329800-55330800	Enhancers	Muscle Satellite Cultured Cells	--
44	chr2:55329800-55332800	Weak transcription	Hela-S3	cervix
45	chr2:55329800-55332800	Weak transcription	K562	blood
46	chr2:55329800-55333000	Weak transcription	NH-A	brain
47	chr2:55329800-55334000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
48	chr2:55329800-55336600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
49	chr2:55330000-55330200	Enhancers	Left Ventricle	heart
50	chr2:55330000-55330400	Weak transcription	Rectal Smooth Muscle	rectum

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