Variant report

Variant	rs56093880
Chromosome Location	chr2:188439901-188439902
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:187752239..187754172-chr2:188437559..188440188,2	K562	blood:
2	chr2:188430133..188432200-chr2:188438721..188440616,2	K562	blood:

Variant related genes	Relation type
ENSG00000003436	Chromatin interaction

Extended variants
information (count: 33 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs73980910	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73980912	1.00[AMR][1000 genomes]
rs73980914	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73980917	1.00[AMR][1000 genomes]
rs73980919	1.00[AMR][1000 genomes]
rs73980927	1.00[AMR][1000 genomes]
rs73980931	1.00[AMR][1000 genomes]
rs73980933	1.00[AMR][1000 genomes]
rs73982963	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73982969	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:23 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv875560	chr2:188219052-188508011	Weak transcription Strong transcription Enhancers Transcr. at gene 5' and 3' Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	nsv875561	chr2:188226900-188440752	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
3	nsv875565	chr2:188258904-188440752	Weak transcription Genic enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
4	nsv875566	chr2:188258904-188626214	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
5	nsv875567	chr2:188258904-188673462	Flanking Active TSS ZNF genes & repeats Active TSS Weak transcription Enhancers Strong transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
6	nsv875568	chr2:188291105-188653806	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
7	nsv875576	chr2:188343497-188482933	Transcr. at gene 5' and 3' Genic enhancers Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
8	nsv875577	chr2:188343497-188500930	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
9	nsv875578	chr2:188343497-188690187	Flanking Active TSS Enhancers Genic enhancers Strong transcription Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
10	nsv997899	chr2:188356689-188531831	Enhancers Flanking Active TSS Weak transcription Genic enhancers Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
11	nsv1014298	chr2:188359747-188531831	Genic enhancers Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
12	nsv1013166	chr2:188359747-188544803	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
13	nsv1014942	chr2:188360116-188480738	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
14	nsv584038	chr2:188370232-188450136	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
15	nsv875580	chr2:188370232-188521234	Weak transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
16	esv2757845	chr2:188380042-188503185	Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
17	esv2759108	chr2:188380042-188503185	ZNF genes & repeats Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
18	nsv875581	chr2:188390819-188521234	Enhancers Strong transcription Weak transcription Bivalent Enhancer Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
19	nsv875582	chr2:188395700-188508011	Enhancers Flanking Active TSS Genic enhancers Weak transcription Transcr. at gene 5' and 3' Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
20	nsv875583	chr2:188395700-188521234	Active TSS Weak transcription Flanking Active TSS Genic enhancers Enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
21	nsv875584	chr2:188414161-188500930	Enhancers Flanking Active TSS Active TSS Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
22	nsv875585	chr2:188424525-188626214	Weak transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
23	nsv584039	chr2:188435643-188482933	Weak transcription Flanking Active TSS Active TSS Enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer	Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:45 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:188419400-188445400	Weak transcription	Colon Smooth Muscle	Colon
2	chr2:188439400-188440600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr2:188439400-188440800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
4	chr2:188439400-188441000	Enhancers	Osteobl	bone
5	chr2:188439400-188442400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr2:188439600-188440000	Enhancers	Primary hematopoietic stem cells	blood
7	chr2:188439600-188440000	Enhancers	NHLF	lung
8	chr2:188439600-188440200	Enhancers	NH-A	brain
9	chr2:188439600-188440200	Enhancers	NHDF-Ad	bronchial
10	chr2:188439600-188440400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr2:188439600-188440400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
12	chr2:188439600-188440400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr2:188439600-188440400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
14	chr2:188439600-188440400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr2:188439600-188440400	Enhancers	HSMMtube	muscle
16	chr2:188439600-188440600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr2:188439600-188440600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr2:188439600-188440600	Enhancers	HSMM	muscle
19	chr2:188439600-188440800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr2:188439600-188440800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
21	chr2:188439600-188440800	Enhancers	Liver	Liver
22	chr2:188439600-188440800	Enhancers	Fetal Kidney	kidney
23	chr2:188439600-188440800	Flanking Active TSS	HUVEC	blood vessel
24	chr2:188439600-188441000	Enhancers	iPS-18 Cell Line	embryonic stem cell
25	chr2:188439600-188441000	Enhancers	Muscle Satellite Cultured Cells	--
26	chr2:188439600-188441000	Enhancers	Duodenum Smooth Muscle	Duodenum
27	chr2:188439600-188441200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
28	chr2:188439600-188441200	Enhancers	HUES48 Cell Line	embryonic stem cell
29	chr2:188439600-188441200	Enhancers	iPS-15b Cell Line	embryonic stem cell
30	chr2:188439600-188442200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
31	chr2:188439600-188442400	Enhancers	ES-I3 Cell Line	embryonic stem cell
32	chr2:188439600-188442400	Enhancers	Cortex derived primary cultured neurospheres	brain
33	chr2:188439600-188442400	Enhancers	Hela-S3	cervix
34	chr2:188439600-188442400	Enhancers	HepG2	liver
35	chr2:188439600-188442600	Enhancers	HUES64 Cell Line	embryonic stem cell
36	chr2:188439800-188440000	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
37	chr2:188439800-188440200	Flanking Active TSS	Fetal Lung	lung
38	chr2:188439800-188440400	Enhancers	H1 Cell Line	embryonic stem cell
39	chr2:188439800-188440400	Flanking Active TSS	A549	lung
40	chr2:188439800-188440800	Enhancers	iPS-20b Cell Line	embryonic stem cell
41	chr2:188439800-188440800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
42	chr2:188439800-188440800	Enhancers	Stomach Mucosa	stomach
43	chr2:188439800-188441000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
44	chr2:188439800-188441400	Weak transcription	Fetal Intestine Large	intestine
45	chr2:188439800-188442600	Enhancers	HUES6 Cell Line	embryonic stem cell

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