Variant report

Variant	rs58730711
Chromosome Location	chr5:42999858-42999859
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:42998105..43003044-chr5:43016342..43020590,4	MCF-7	breast:
2	chr5:42999330..43002712-chr5:43065180..43068954,4	MCF-7	breast:
3	chr5:42989588..43001279-chr5:43004636..43014428,32	K562	blood:
4	chr5:42949709..42952302-chr5:42999079..43000906,2	MCF-7	breast:
5	chr5:42991772..42994897-chr5:42997978..43001031,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000251131	Chromatin interaction
ENSG00000172262	Chromatin interaction
ENSG00000177738	Chromatin interaction
ENSG00000271788	Chromatin interaction

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs1389304	0.88[AFR][1000 genomes]
rs55672386	0.88[AFR][1000 genomes]
rs56017053	0.88[AFR][1000 genomes]
rs58237022	0.88[AFR][1000 genomes]
rs58551906	0.88[AFR][1000 genomes]
rs61242377	0.88[AFR][1000 genomes]
rs73751007	0.88[AFR][1000 genomes]
rs73754520	0.88[AFR][1000 genomes]
rs73754527	0.88[AFR][1000 genomes]
rs73754531	0.88[AFR][1000 genomes]
rs73754535	0.88[AFR][1000 genomes]
rs73754536	0.88[AFR][1000 genomes]
rs73754539	0.88[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:16 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv993554	chr5:42720939-43251863	Bivalent/Poised TSS Strong transcription Active TSS Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	298 gene(s)	inside rSNPs	diseases
2	nsv462126	chr5:42728831-43237188	Active TSS Enhancers Bivalent Enhancer Weak transcription Genic enhancers Flanking Active TSS Strong transcription 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	297 gene(s)	inside rSNPs	diseases
3	nsv597925	chr5:42728831-43237188	Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Enhancers Weak transcription Bivalent Enhancer Strong transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	297 gene(s)	inside rSNPs	diseases
4	nsv1023741	chr5:42768215-43348145	Flanking Active TSS Weak transcription Bivalent/Poised TSS Enhancers Strong transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	309 gene(s)	inside rSNPs	diseases
5	nsv537737	chr5:42768215-43348145	Genic enhancers Enhancers Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	309 gene(s)	inside rSNPs	diseases
6	nsv534185	chr5:42804840-43067088	Weak transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	165 gene(s)	inside rSNPs	diseases
7	nsv1029288	chr5:42928085-43047323	Flanking Bivalent TSS/Enh Active TSS Genic enhancers Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	120 gene(s)	inside rSNPs	diseases
8	nsv1020910	chr5:42929799-43000021	Weak transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases
9	nsv537738	chr5:42929799-43000021	Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Enhancers Genic enhancers Bivalent/Poised TSS Weak transcription Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases
10	nsv968169	chr5:42956713-43043472	Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	116 gene(s)	inside rSNPs	diseases
11	nsv1024636	chr5:42959979-43295782	Active TSS Bivalent Enhancer Weak transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	283 gene(s)	inside rSNPs	diseases
12	nsv537739	chr5:42959979-43295782	Strong transcription Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Flanking 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	283 gene(s)	inside rSNPs	diseases
13	nsv881436	chr5:42967215-43008917	Flanking Active TSS Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	50 gene(s)	inside rSNPs	diseases
14	nsv880447	chr5:42967215-43030798	Bivalent Enhancer Active TSS Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	97 gene(s)	inside rSNPs	diseases
15	nsv881640	chr5:42978644-43028221	Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Weak transcription Enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	94 gene(s)	inside rSNPs	diseases
16	nsv880415	chr5:42978644-43030798	Flanking Active TSS Enhancers Bivalent/Poised TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	94 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:42995000-43000000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr5:42995000-43000400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr5:42995600-43000000	Weak transcription	HMEC	breast
4	chr5:42995800-43000000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr5:42995800-43000000	Weak transcription	K562	blood
6	chr5:42995800-43000200	Weak transcription	Muscle Satellite Cultured Cells	--
7	chr5:42995800-43000200	Weak transcription	Placenta	Placenta
8	chr5:42996000-43000000	Weak transcription	Primary neutrophils fromperipheralblood	blood
9	chr5:42996000-43000200	Weak transcription	Thymus	Thymus
10	chr5:42996000-43000800	Weak transcription	Spleen	Spleen
11	chr5:42996200-43000000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr5:42996200-43000000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
13	chr5:42996600-43000000	Weak transcription	HepG2	liver
14	chr5:42996600-43000200	Weak transcription	Osteobl	bone
15	chr5:42996800-43000000	Weak transcription	NHLF	lung
16	chr5:42996800-43000200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
17	chr5:42997000-43000000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr5:42997000-43000000	Weak transcription	HUVEC	blood vessel
19	chr5:42997000-43000200	Weak transcription	Primary T cells fromperipheralblood	blood
20	chr5:42997000-43000400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
21	chr5:42997200-43000000	Weak transcription	Primary T helper cells PMA-I stimulated	--
22	chr5:42997200-43007200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
23	chr5:42997800-43000200	Weak transcription	Primary T helper cells fromperipheralblood	blood
24	chr5:42998600-43006400	Weak transcription	Dnd41	blood
25	chr5:42999200-43000200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr5:42999600-43000000	Bivalent Enhancer	iPS-18 Cell Line	embryonic stem cell
27	chr5:42999600-43000000	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Male	--
28	chr5:42999600-43000000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
29	chr5:42999600-43000000	Enhancers	NHEK	skin
30	chr5:42999600-43000200	Flanking Active TSS	A549	lung
31	chr5:42999800-43000000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
32	chr5:42999800-43000000	Enhancers	NHDF-Ad	bronchial
33	chr5:42999800-43000200	Flanking Active TSS	ES-I3 Cell Line	embryonic stem cell
34	chr5:42999800-43000200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
35	chr5:42999800-43000400	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
36	chr5:42999800-43001200	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell

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