Variant report

Variant	rs13435851
Chromosome Location	chr4:3401310-3401311
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:2963167..2965598-chr4:3401246..3402939,2	K562	blood:
2	chr4:3401278..3402259-chr4:3444676..3445847,3	MCF-7	breast:
3	chr4:3398215..3400118-chr4:3400770..3402288,2	K562	blood:

Variant related genes	Relation type
ENSG00000125388	Chromatin interaction
ENSG00000087269	Chromatin interaction

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10007038	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10035011	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10049879	0.95[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1406673	1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16844254	1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16844260	1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16844272	1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28410709	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28420539	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28457232	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28489501	0.91[AFR][1000 genomes]
rs28505211	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28535968	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28636983	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28647422	0.82[AFR][1000 genomes]
rs58249502	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61527677	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6446736	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6446737	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6446738	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6446739	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6812029	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6825183	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6829410	1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6847900	0.95[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73792009	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73792011	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73792031	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73792038	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7656119	1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 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	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
4	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
5	nsv878462	chr4:3311548-3505448	Strong transcription Enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
6	nsv1007847	chr4:3317904-3527357	Enhancers Weak transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
7	nsv537001	chr4:3317904-3527357	Weak transcription Enhancers Strong transcription Genic enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
8	nsv878463	chr4:3363994-3498896	Enhancers Weak transcription Bivalent Enhancer Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
9	nsv428435	chr4:3386773-3623321	Enhancers Strong transcription Weak transcription Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
10	nsv933265	chr4:3392824-4283640	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
11	esv2757918	chr4:3394344-4350986	Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Weak transcription 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	64 gene(s)	inside rSNPs	diseases
12	esv2759219	chr4:3394344-4350986	Weak transcription Flanking Active TSS Strong transcription Enhancers Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:51 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:3389200-3403400	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr4:3390000-3404600	Weak transcription	Left Ventricle	heart
3	chr4:3390000-3417200	Weak transcription	Gastric	stomach
4	chr4:3391000-3404600	Weak transcription	Aorta	Aorta
5	chr4:3391000-3414000	Weak transcription	Primary T cells from cord blood	blood
6	chr4:3391400-3407400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr4:3391400-3408800	Weak transcription	Ovary	ovary
8	chr4:3391600-3404000	Weak transcription	HSMMtube	muscle
9	chr4:3391600-3407800	Weak transcription	Brain Cingulate Gyrus	brain
10	chr4:3391800-3401400	Weak transcription	Liver	Liver
11	chr4:3391800-3403000	Weak transcription	HMEC	breast
12	chr4:3391800-3403400	Weak transcription	Muscle Satellite Cultured Cells	--
13	chr4:3391800-3424200	Weak transcription	Colonic Mucosa	Colon
14	chr4:3392000-3417200	Weak transcription	Pancreas	Pancrea
15	chr4:3392400-3403200	Weak transcription	Fetal Intestine Small	intestine
16	chr4:3392400-3409800	Weak transcription	Spleen	Spleen
17	chr4:3392600-3404200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
18	chr4:3393400-3405400	Weak transcription	Brain Germinal Matrix	brain
19	chr4:3393800-3405600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
20	chr4:3394600-3405400	Weak transcription	Fetal Muscle Leg	muscle
21	chr4:3395000-3403200	Weak transcription	HSMM	muscle
22	chr4:3395800-3403200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
23	chr4:3395800-3403600	Weak transcription	Lung	lung
24	chr4:3395800-3406000	Weak transcription	HepG2	liver
25	chr4:3396000-3406000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
26	chr4:3396400-3403400	Weak transcription	Fetal Muscle Trunk	muscle
27	chr4:3396600-3402800	Weak transcription	NHEK	skin
28	chr4:3396800-3403600	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
29	chr4:3397200-3401400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr4:3398400-3403200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr4:3398400-3405600	Weak transcription	Fetal Brain Female	brain
32	chr4:3398400-3405800	Weak transcription	Fetal Lung	lung
33	chr4:3398600-3403000	Weak transcription	Cortex derived primary cultured neurospheres	brain
34	chr4:3398600-3403200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
35	chr4:3398600-3404000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
36	chr4:3399000-3401400	Weak transcription	Skeletal Muscle Female	skeletal muscle
37	chr4:3399000-3406200	Weak transcription	Adipose Nuclei	Adipose
38	chr4:3399200-3403200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
39	chr4:3399200-3403200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
40	chr4:3399200-3403200	Weak transcription	Esophagus	oesophagus
41	chr4:3399200-3408800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
42	chr4:3399200-3432200	Weak transcription	Right Atrium	heart
43	chr4:3399400-3401600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
44	chr4:3399400-3403400	Weak transcription	Fetal Stomach	stomach
45	chr4:3400000-3402000	Genic enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
46	chr4:3400000-3403600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
47	chr4:3400200-3401800	Enhancers	Monocytes-CD14+_RO01746	blood
48	chr4:3401000-3401600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr4:3401000-3401800	Enhancers	Primary B cells from peripheral blood	blood
50	chr4:3401000-3402000	Enhancers	Primary monocytes fromperipheralblood	blood

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