Variant report

Variant	rs2051559
Chromosome Location	chr4:3298800-3298801
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:3293263..3296251-chr4:3298199..3300477,2	K562	blood:
2	chr4:3297687..3301019-chr4:3306995..3308843,3	K562	blood:
3	chr4:3297413..3300399-chr4:3305342..3309576,4	MCF-7	breast:
4	chr4:3297878..3299647-chr4:3439847..3442316,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000159788	Chromatin interaction

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs1138690	1.00[CHB][hapmap];0.84[CHD][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs12500459	0.86[JPT][hapmap];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12504986	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12505018	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12506821	0.90[CHB][hapmap];0.88[GIH][hapmap];0.94[JPT][hapmap];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12508004	0.90[CHB][hapmap];0.88[GIH][hapmap];0.94[JPT][hapmap];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12510489	0.90[CHB][hapmap];0.88[GIH][hapmap];0.94[JPT][hapmap];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13435854	1.00[YRI][hapmap]
rs3129317	0.84[ASN][1000 genomes]
rs3135062	0.94[ASN][1000 genomes]
rs3135063	0.93[JPT][hapmap]
rs57010886	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6851060	0.84[EUR][1000 genomes]
rs73193339	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs73193340	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73193341	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73193343	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs73193346	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7658412	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7658462	0.90[CHB][hapmap];0.88[GIH][hapmap];0.93[JPT][hapmap];0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:14 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3418626	chr4:2741174-3461492	Genic enhancers Weak transcription Active TSS Strong transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
2	esv3397632	chr4:2741239-3460583	Enhancers Flanking Active TSS Weak transcription Genic enhancers Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
3	nsv998290	chr4:3176454-3355758	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
4	nsv878454	chr4:3215835-3305739	Active TSS Flanking Active TSS Bivalent Enhancer Enhancers Weak transcription Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA target site	6 gene(s)	inside rSNPs	diseases
5	nsv878455	chr4:3215835-3344891	Strong transcription Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
6	nsv878456	chr4:3215835-3467519	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
7	nsv428106	chr4:3226182-3752322	Enhancers ZNF genes & repeats Weak transcription Strong transcription Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
8	nsv878458	chr4:3235518-3303976	Active TSS Flanking Active TSS Enhancers Weak transcription Strong transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA target site	6 gene(s)	inside rSNPs	diseases
9	nsv878459	chr4:3235518-3310831	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region miRNA target site	7 gene(s)	inside rSNPs	diseases
10	nsv878460	chr4:3260154-3303976	Strong transcription Active TSS Transcr. at gene 5' and 3' Weak transcription Bivalent Enhancer Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
11	nsv878461	chr4:3270488-3339038	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
12	nsv593440	chr4:3283422-3339038	Enhancers Weak transcription Bivalent Enhancer Genic enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
13	nsv461165	chr4:3283422-3342137	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
14	nsv593441	chr4:3283422-3342137	Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:65 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:3294600-3308800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr4:3295600-3300600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
3	chr4:3296000-3300800	Weak transcription	Right Atrium	heart
4	chr4:3296000-3301000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr4:3296000-3301000	Weak transcription	Psoas Muscle	Psoas
6	chr4:3296000-3306000	Weak transcription	Colon Smooth Muscle	Colon
7	chr4:3296200-3300800	Weak transcription	HSMMtube	muscle
8	chr4:3296200-3301200	Weak transcription	Primary T cells fromperipheralblood	blood
9	chr4:3296200-3301200	Weak transcription	Brain Hippocampus Middle	brain
10	chr4:3296400-3299600	ZNF genes & repeats	Fetal Stomach	stomach
11	chr4:3296400-3300800	Weak transcription	Primary T cells from cord blood	blood
12	chr4:3296400-3301800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
13	chr4:3296600-3299200	Weak transcription	Adipose Nuclei	Adipose
14	chr4:3296600-3299200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
15	chr4:3296600-3300600	Weak transcription	Primary T helper cells fromperipheralblood	blood
16	chr4:3296600-3300800	Weak transcription	Ovary	ovary
17	chr4:3296600-3300800	Weak transcription	Skeletal Muscle Male	skeletal muscle
18	chr4:3296600-3301200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
19	chr4:3296600-3318600	Weak transcription	Placenta Amnion	Placenta Amnion
20	chr4:3296800-3299200	Weak transcription	NHLF	lung
21	chr4:3296800-3300600	Weak transcription	Fetal Heart	heart
22	chr4:3296800-3300800	Weak transcription	Left Ventricle	heart
23	chr4:3296800-3300800	Weak transcription	Lung	lung
24	chr4:3296800-3300800	Weak transcription	Right Ventricle	heart
25	chr4:3296800-3301400	Weak transcription	Fetal Brain Male	brain
26	chr4:3296800-3301600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
27	chr4:3296800-3301800	Weak transcription	Gastric	stomach
28	chr4:3296800-3306800	Weak transcription	Pancreas	Pancrea
29	chr4:3297000-3298800	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
30	chr4:3297000-3299200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
31	chr4:3297000-3299200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
32	chr4:3297000-3300400	Weak transcription	Fetal Kidney	kidney
33	chr4:3297000-3300600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
34	chr4:3297000-3301000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
35	chr4:3297000-3301000	Weak transcription	Fetal Muscle Leg	muscle
36	chr4:3297000-3301200	Weak transcription	HUES6 Cell Line	embryonic stem cell
37	chr4:3297000-3301600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
38	chr4:3297000-3301600	Weak transcription	Fetal Muscle Trunk	muscle
39	chr4:3297200-3299200	Weak transcription	HUVEC	blood vessel
40	chr4:3297600-3298800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
41	chr4:3297600-3298800	Enhancers	Spleen	Spleen
42	chr4:3297600-3299600	ZNF genes & repeats	Brain Germinal Matrix	brain
43	chr4:3297600-3299600	Strong transcription	Fetal Intestine Small	intestine
44	chr4:3297800-3299400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
45	chr4:3298000-3299400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
46	chr4:3298200-3299400	Strong transcription	Fetal Lung	lung
47	chr4:3298200-3299400	Strong transcription	Stomach Smooth Muscle	stomach
48	chr4:3298200-3299600	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
49	chr4:3298200-3299600	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin01	Skin
50	chr4:3298200-3299600	Enhancers	Skeletal Muscle Female	skeletal muscle

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