Variant report

Variant	rs2408526
Chromosome Location	chr13:52385471-52385472
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:51708388..51710526-chr13:52384073..52385619,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-WDFY2-1	chr13:52378295-52387482	NONHSAT033952

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs1034096	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4290380	0.95[CHB][hapmap];0.91[JPT][hapmap];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9316555	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9316556	0.86[AMR][1000 genomes]
rs9526796	1.00[CHB][hapmap];0.91[JPT][hapmap];0.97[ASN][1000 genomes]
rs975504	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530718	chr13:52291802-52832752	Enhancers ZNF genes & repeats Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS Strong transcription Genic enhancers 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	38 gene(s)	inside rSNPs	diseases
2	nsv933424	chr13:52293482-52507732	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
3	nsv455884	chr13:52302630-52405251	Enhancers Flanking Active TSS Strong transcription Genic enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
4	nsv561644	chr13:52302630-52405251	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
5	nsv455887	chr13:52318522-52405251	Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
6	nsv561645	chr13:52318522-52405251	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
7	nsv1044310	chr13:52321564-52643924	Weak transcription Flanking Active TSS ZNF genes & repeats Enhancers Strong transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
8	nsv1050117	chr13:52325116-52643924	Enhancers Genic enhancers Flanking Active TSS Strong transcription Active TSS Weak transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
9	esv1840020	chr13:52345838-52388765	Weak transcription Enhancers Genic enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
10	nsv934070	chr13:52362588-53174923	Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Active TSS Enhancers Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	59 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	chr13:52378600-52389200	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr13:52379000-52389000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr13:52379000-52389200	Weak transcription	Ovary	ovary
4	chr13:52379200-52385600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
5	chr13:52379400-52386000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr13:52379400-52386400	Weak transcription	Hela-S3	cervix
7	chr13:52379400-52389000	Weak transcription	Placenta	Placenta
8	chr13:52379400-52389200	Weak transcription	H1 Cell Line	embryonic stem cell
9	chr13:52379600-52385800	Weak transcription	Primary monocytes fromperipheralblood	blood
10	chr13:52379600-52389000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
11	chr13:52379600-52389000	Weak transcription	Fetal Intestine Small	intestine
12	chr13:52379600-52389000	Weak transcription	Rectal Mucosa Donor 29	rectum
13	chr13:52379600-52389200	Weak transcription	Thymus	Thymus
14	chr13:52379800-52386200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
15	chr13:52379800-52389200	Weak transcription	HUES48 Cell Line	embryonic stem cell
16	chr13:52379800-52389200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr13:52379800-52392200	Weak transcription	H9 Cell Line	embryonic stem cell
18	chr13:52379800-52392200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
19	chr13:52380000-52386000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
20	chr13:52380000-52389000	Weak transcription	Stomach Smooth Muscle	stomach
21	chr13:52380200-52388800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
22	chr13:52380200-52389000	Weak transcription	Rectal Mucosa Donor 31	rectum
23	chr13:52380200-52393200	Weak transcription	Aorta	Aorta
24	chr13:52380800-52386000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
25	chr13:52380800-52389200	Weak transcription	Brain Cingulate Gyrus	brain
26	chr13:52381000-52386000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
27	chr13:52381000-52386000	Weak transcription	Adipose Nuclei	Adipose
28	chr13:52381200-52386000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
29	chr13:52381200-52389000	Weak transcription	Skeletal Muscle Male	skeletal muscle
30	chr13:52381400-52387400	Weak transcription	Fetal Brain Female	brain
31	chr13:52381600-52385800	Weak transcription	K562	blood
32	chr13:52381600-52386200	Strong transcription	Primary T cells from cord blood	blood
33	chr13:52382000-52386000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
34	chr13:52382000-52388800	Weak transcription	Pancreas	Pancrea
35	chr13:52382200-52389000	Weak transcription	Right Atrium	heart
36	chr13:52382600-52386000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
37	chr13:52382800-52387800	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
38	chr13:52383000-52385800	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
39	chr13:52383400-52389000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
40	chr13:52384200-52389000	Weak transcription	Esophagus	oesophagus
41	chr13:52384600-52389000	Genic enhancers	Primary T helper cells PMA-I stimulated	--
42	chr13:52385000-52386400	Enhancers	Lung	lung
43	chr13:52385000-52386600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
44	chr13:52385000-52386600	Enhancers	Primary B cells from peripheral blood	blood
45	chr13:52385000-52386600	Enhancers	Primary hematopoietic stem cells	blood
46	chr13:52385000-52386600	Genic enhancers	Primary T helper naive cells from peripheral blood	blood
47	chr13:52385000-52386600	Genic enhancers	Primary T helper cells fromperipheralblood	blood
48	chr13:52385000-52386600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
49	chr13:52385000-52386800	Enhancers	Primary B cells from cord blood	blood
50	chr13:52385000-52386800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood

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