Variant report

Variant	rs11666362
Chromosome Location	chr19:56157358-56157359
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr19:56156971-56157393	MCF10A-Er-Src	breast:	n/a	n/a
2	POLR2A	chr19:56157186-56158043	HepG2	liver:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr19:55951636..55954321-chr19:56156627..56158922,2	K562	blood:
2	chr19:56009548..56011296-chr19:56155701..56158462,2	K562	blood:

Variant related genes	Relation type
CCDC106	TF binding region
ENSG00000187902	Chromatin interaction

Extended variants
information (count: 18 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs11084406	1.00[AFR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11665872	1.00[AFR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11671023	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2112799	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3786650	1.00[ASN][1000 genomes]
rs4541174	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4801261	1.00[ASN][1000 genomes]
rs73062531	0.93[AFR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73062564	1.00[ASN][1000 genomes]
rs8104386	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv912487	chr19:55977909-56215184	Enhancers Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	109 gene(s)	inside rSNPs	diseases
2	nsv912494	chr19:56026072-56215184	Genic enhancers Bivalent Enhancer Flanking Active TSS Active TSS Enhancers Weak transcription Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	97 gene(s)	inside rSNPs	diseases
3	nsv912498	chr19:56041848-56215184	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	97 gene(s)	inside rSNPs	diseases
4	nsv912500	chr19:56078722-56175515	Flanking Active TSS Enhancers Active TSS Weak transcription Strong transcription ZNF genes & repeats 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	86 gene(s)	inside rSNPs	diseases
5	nsv912501	chr19:56093365-56215184	Flanking Active TSS Weak transcription Strong transcription Active TSS Transcr. at gene 5' and 3' Enhancers Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	92 gene(s)	inside rSNPs	diseases
6	nsv428026	chr19:56130849-56423514	Flanking Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Active TSS Strong transcription Weak transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	82 gene(s)	inside rSNPs	diseases
7	nsv912503	chr19:56149077-56162776	Genic enhancers Flanking Active TSS Strong transcription Enhancers Active TSS Weak transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	30 gene(s)	inside rSNPs	diseases
8	nsv912504	chr19:56149077-56170415	Flanking Active TSS Genic enhancers Active TSS Enhancers Weak transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	57 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11666362	ZNF580	cis	Artery Tibial	GTEx

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:56155800-56157400	Transcr. at gene 5' and 3'	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr19:56155800-56158800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr19:56156000-56157800	Genic enhancers	Adipose Nuclei	Adipose
4	chr19:56156000-56157800	Genic enhancers	Placenta	Placenta
5	chr19:56156000-56158600	Weak transcription	Pancreatic Islets	Pancreatic Islet
6	chr19:56156000-56158600	Weak transcription	Rectal Mucosa Donor 31	rectum
7	chr19:56156000-56158800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr19:56156200-56157400	Strong transcription	Primary monocytes fromperipheralblood	blood
9	chr19:56156200-56157400	Strong transcription	Primary neutrophils fromperipheralblood	blood
10	chr19:56156200-56157400	Genic enhancers	Primary T helper cells fromperipheralblood	blood
11	chr19:56156200-56158400	Weak transcription	Fetal Brain Male	brain
12	chr19:56156200-56158400	Weak transcription	Fetal Lung	lung
13	chr19:56156200-56158400	Strong transcription	Fetal Stomach	stomach
14	chr19:56156200-56158400	Weak transcription	Left Ventricle	heart
15	chr19:56156200-56158400	Weak transcription	Small Intestine	intestine
16	chr19:56156200-56158600	Weak transcription	Psoas Muscle	Psoas
17	chr19:56156200-56158600	Weak transcription	Stomach Mucosa	stomach
18	chr19:56156200-56158800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
19	chr19:56156200-56158800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
20	chr19:56156200-56158800	Weak transcription	Right Atrium	heart
21	chr19:56156400-56157400	Strong transcription	ES-I3 Cell Line	embryonic stem cell
22	chr19:56156400-56157400	Strong transcription	H1 Cell Line	embryonic stem cell
23	chr19:56156400-56157400	Strong transcription	HUES48 Cell Line	embryonic stem cell
24	chr19:56156400-56157400	Strong transcription	iPS-15b Cell Line	embryonic stem cell
25	chr19:56156400-56157400	Strong transcription	iPS-18 Cell Line	embryonic stem cell
26	chr19:56156400-56157400	Genic enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr19:56156400-56157400	Genic enhancers	Primary T helper cells PMA-I stimulated	--
28	chr19:56156400-56157600	Genic enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
29	chr19:56156400-56158800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
30	chr19:56156600-56157400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
31	chr19:56156600-56157400	Strong transcription	HUVEC	blood vessel
32	chr19:56156600-56157800	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
33	chr19:56156600-56158600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
34	chr19:56156600-56158800	Weak transcription	Colonic Mucosa	Colon
35	chr19:56156800-56157400	Strong transcription	HUES64 Cell Line	embryonic stem cell
36	chr19:56156800-56157400	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
37	chr19:56156800-56157400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
38	chr19:56156800-56157400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
39	chr19:56156800-56157400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
40	chr19:56156800-56157400	Strong transcription	Liver	Liver
41	chr19:56156800-56157400	Strong transcription	Fetal Muscle Leg	muscle
42	chr19:56156800-56157400	Strong transcription	Fetal Thymus	thymus
43	chr19:56156800-56157400	Genic enhancers	HMEC	breast
44	chr19:56156800-56157400	Strong transcription	NHEK	skin
45	chr19:56156800-56157600	Weak transcription	Primary B cells from cord blood	blood
46	chr19:56156800-56157800	Strong transcription	Cortex derived primary cultured neurospheres	brain
47	chr19:56156800-56158400	Weak transcription	Fetal Heart	heart
48	chr19:56156800-56158400	Weak transcription	Placenta Amnion	Placenta Amnion
49	chr19:56156800-56158600	Weak transcription	Brain Angular Gyrus	brain
50	chr19:56157000-56157400	Strong transcription	HUES6 Cell Line	embryonic stem cell

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