Variant report

Variant	rs542411116
Chromosome Location	chr10:5008083-5008084
allele	A/G
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	chr10:5006283-5008545	HepG2	liver:	n/a	n/a
2	YY1	chr10:5007809-5008393	A549	lung:	n/a	n/a
3	POLR2A	chr10:5007063-5008212	HepG2	liver:	n/a	n/a
4	YY1	chr10:5008020-5008198	HepG2	liver:	n/a	n/a
5	HEY1	chr10:5005313-5008731	HepG2	liver:	n/a	n/a
6	SP1	chr10:5007683-5008506	A549	lung:	n/a	n/a
7	POLR2A	chr10:5006528-5008192	A549	lung:	n/a	n/a
8	BCL3	chr10:5006044-5008338	A549	lung:	n/a	n/a
9	FOXA2	chr10:5007998-5008347	A549	lung:	n/a	n/a
10	POLR2A	chr10:5005321-5012094	HepG2	liver:	n/a	n/a
11	POLR2A	chr10:5007829-5008120	A549	lung:	n/a	n/a
12	HEY1	chr10:5007854-5008488	HepG2	liver:	n/a	n/a
13	POLR2A	chr10:5007834-5008345	A549	lung:	n/a	n/a
14	POLR2A	chr10:5006471-5008272	HepG2	liver:	n/a	n/a
15	POLR2A	chr10:5006930-5008241	HepG2	liver:	n/a	n/a
16	JUND	chr10:5006865-5008577	A549	lung:	n/a	n/a
17	TCF12	chr10:5006814-5008262	A549	lung:	n/a	n/a
18	POLR2A	chr10:5007849-5008096	HepG2	liver:	n/a	n/a

Variant related genes	Relation type
ENSG00000238840	TF binding region

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

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	nsv894792	chr10:4832920-5498724	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
2	nsv948794	chr10:4863093-5227382	Enhancers Strong transcription Flanking Active TSS Weak transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
3	nsv1045155	chr10:4872239-5211318	Enhancers Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
4	nsv1040343	chr10:4872814-5196815	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
5	nsv540462	chr10:4872814-5196815	Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
6	nsv869470	chr10:4878904-5203685	Weak transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
7	nsv466713	chr10:4901798-5319679	Active TSS Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
8	nsv549881	chr10:4901798-5319679	Enhancers Weak transcription Genic enhancers Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
9	nsv534685	chr10:4914018-5853324	Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Genic enhancers 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	68 gene(s)	inside rSNPs	diseases
10	nsv1050246	chr10:4927428-5211318	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
11	nsv549882	chr10:4943518-5203864	Weak transcription Flanking Active TSS Enhancers Strong transcription Transcr. at gene 5' and 3' Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
12	esv2763913	chr10:4961021-5321407	Enhancers Flanking Active TSS Strong transcription Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
13	nsv894794	chr10:4972761-5121745	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
14	nsv430122	chr10:4986040-5134511	Enhancers Weak transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
15	nsv825221	chr10:4999349-5046239	Weak transcription Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
16	nsv947726	chr10:5008069-5012084	Flanking Bivalent TSS/Enh Strong transcription Weak transcription Enhancers Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:41 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:4998200-5023800	Weak transcription	Gastric	stomach
2	chr10:5004200-5008400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr10:5004800-5023800	Weak transcription	Primary hematopoietic stem cells	blood
4	chr10:5005200-5008400	Active TSS	Liver	Liver
5	chr10:5005600-5008200	Active TSS	Duodenum Smooth Muscle	Duodenum
6	chr10:5005600-5009600	Active TSS	Right Atrium	heart
7	chr10:5005800-5009000	Weak transcription	Primary neutrophils fromperipheralblood	blood
8	chr10:5005800-5011000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr10:5005800-5027400	Weak transcription	Fetal Stomach	stomach
10	chr10:5005800-5045800	Weak transcription	HSMMtube	muscle
11	chr10:5006000-5023800	Weak transcription	Esophagus	oesophagus
12	chr10:5006000-5023800	Weak transcription	Left Ventricle	heart
13	chr10:5006000-5024000	Weak transcription	Fetal Muscle Trunk	muscle
14	chr10:5006200-5011000	Weak transcription	Ovary	ovary
15	chr10:5006200-5011200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
16	chr10:5006800-5010800	Weak transcription	Skeletal Muscle Female	skeletal muscle
17	chr10:5006800-5011200	Weak transcription	Osteobl	bone
18	chr10:5007200-5008600	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr10:5007200-5009400	Weak transcription	Stomach Smooth Muscle	stomach
20	chr10:5007200-5010600	Weak transcription	Muscle Satellite Cultured Cells	--
21	chr10:5007200-5011200	Weak transcription	Aorta	Aorta
22	chr10:5007200-5011600	Weak transcription	Fetal Heart	heart
23	chr10:5007200-5021600	Weak transcription	Brain Cingulate Gyrus	brain
24	chr10:5007200-5023200	Weak transcription	Fetal Intestine Large	intestine
25	chr10:5007200-5023600	Weak transcription	Fetal Intestine Small	intestine
26	chr10:5007200-5023800	Weak transcription	Skeletal Muscle Male	skeletal muscle
27	chr10:5007400-5008200	Enhancers	Fetal Brain Male	brain
28	chr10:5007400-5010800	Weak transcription	Fetal Brain Female	brain
29	chr10:5007400-5011000	Weak transcription	Duodenum Mucosa	Duodenum
30	chr10:5007400-5023800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
31	chr10:5007400-5023800	Weak transcription	Right Ventricle	heart
32	chr10:5007400-5024200	Weak transcription	NHEK	skin
33	chr10:5007600-5010800	Weak transcription	Brain Germinal Matrix	brain
34	chr10:5007800-5008200	Flanking Active TSS	Adipose Nuclei	Adipose
35	chr10:5008000-5008200	Flanking Bivalent TSS/Enh	HepG2	liver
36	chr10:5008000-5008200	Flanking Active TSS	NHDF-Ad	bronchial
37	chr10:5008000-5008800	Enhancers	Stomach Mucosa	stomach
38	chr10:5008000-5009600	Transcr. at gene 5' and 3'	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
39	chr10:5008000-5009600	Transcr. at gene 5' and 3'	A549	lung
40	chr10:5008000-5010800	Weak transcription	Psoas Muscle	Psoas
41	chr10:5008000-5011000	Weak transcription	K562	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links