Variant report

Variant	rs539246142
Chromosome Location	chr15:100264589-100264590
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:99875624..99878223-chr15:100263924..100266791,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000259257	Chromatin interaction

Extended variants
information (count: 19 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:19 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1036346	chr15:99752391-100365458	Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Enhancers Weak transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
2	nsv542520	chr15:99752391-100365458	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer 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	47 gene(s)	inside rSNPs	diseases
3	nsv817201	chr15:99839238-100537341	Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
4	nsv1038005	chr15:100170414-100633714	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
5	nsv542522	chr15:100170414-100633714	Strong transcription Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
6	nsv904560	chr15:100196657-100339331	Strong transcription Weak transcription Enhancers Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
7	nsv904561	chr15:100204918-100486828	Strong transcription Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
8	nsv428313	chr15:100236203-100757039	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats 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	23 gene(s)	inside rSNPs	diseases
9	nsv904563	chr15:100239546-100274747	Enhancers Active TSS Flanking Active TSS Weak transcription Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
10	nsv570730	chr15:100240910-100700520	Flanking Active TSS Weak transcription Enhancers Active TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
11	nsv1045838	chr15:100243067-101032218	Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats 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
12	nsv904564	chr15:100245296-100723798	Bivalent/Poised TSS Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
13	nsv932678	chr15:100250311-101012358	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
14	esv3311635	chr15:100263882-100264626	Weak transcription ZNF genes & repeats Enhancers Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
15	esv3505524	chr15:100263888-100264599	Weak transcription Enhancers Strong transcription ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
16	esv3505521	chr15:100263913-100264625	Weak transcription Strong transcription ZNF genes & repeats Enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
17	esv3505526	chr15:100263924-100264601	Weak transcription Strong transcription Enhancers ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
18	esv3311632	chr15:100263930-100264597	Weak transcription Strong transcription Enhancers ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
19	esv3311634	chr15:100263938-100264592	Weak transcription Enhancers ZNF genes & repeats Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:103 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:100244600-100272400	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr15:100249600-100272800	Weak transcription	Small Intestine	intestine
3	chr15:100249800-100272200	Weak transcription	HUVEC	blood vessel
4	chr15:100251800-100271800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr15:100252200-100271400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr15:100253000-100265000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr15:100253000-100271800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
8	chr15:100253200-100268400	Weak transcription	Placenta Amnion	Placenta Amnion
9	chr15:100253600-100267600	Weak transcription	Fetal Brain Female	brain
10	chr15:100253600-100268000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr15:100253600-100268000	Weak transcription	Brain Germinal Matrix	brain
12	chr15:100253600-100268200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
13	chr15:100253600-100272400	Weak transcription	Stomach Mucosa	stomach
14	chr15:100255400-100269000	Weak transcription	Rectal Mucosa Donor 31	rectum
15	chr15:100255800-100268400	Weak transcription	HUES48 Cell Line	embryonic stem cell
16	chr15:100256000-100265000	Weak transcription	Hela-S3	cervix
17	chr15:100256800-100265200	Weak transcription	Cortex derived primary cultured neurospheres	brain
18	chr15:100257000-100268200	Weak transcription	Gastric	stomach
19	chr15:100257200-100265000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
20	chr15:100257200-100267800	Weak transcription	Duodenum Mucosa	Duodenum
21	chr15:100257200-100268400	Weak transcription	Liver	Liver
22	chr15:100257400-100265000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr15:100257600-100270400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
24	chr15:100257800-100267200	Weak transcription	Rectal Smooth Muscle	rectum
25	chr15:100257800-100267600	Weak transcription	NHLF	lung
26	chr15:100258000-100265000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
27	chr15:100258000-100265000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
28	chr15:100258000-100265200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
29	chr15:100258000-100267800	Weak transcription	Ovary	ovary
30	chr15:100258000-100268000	Weak transcription	Brain Anterior Caudate	brain
31	chr15:100258000-100268200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
32	chr15:100258000-100268600	Weak transcription	Colonic Mucosa	Colon
33	chr15:100258000-100268600	Weak transcription	Rectal Mucosa Donor 29	rectum
34	chr15:100258000-100272000	Weak transcription	Monocytes-CD14+_RO01746	blood
35	chr15:100258400-100268200	Weak transcription	Brain Angular Gyrus	brain
36	chr15:100258600-100265000	Weak transcription	Fetal Intestine Large	intestine
37	chr15:100258600-100268400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
38	chr15:100259000-100265800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
39	chr15:100259000-100268000	Weak transcription	Brain Hippocampus Middle	brain
40	chr15:100259000-100268000	Weak transcription	Brain Substantia Nigra	brain
41	chr15:100259000-100268200	Weak transcription	Brain Cingulate Gyrus	brain
42	chr15:100259200-100270200	Weak transcription	Fetal Kidney	kidney
43	chr15:100259400-100268400	Weak transcription	Brain Inferior Temporal Lobe	brain
44	chr15:100259800-100268000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
45	chr15:100259800-100268800	Weak transcription	Muscle Satellite Cultured Cells	--
46	chr15:100259800-100272200	Weak transcription	Osteobl	bone
47	chr15:100260000-100265000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
48	chr15:100260000-100268200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
49	chr15:100260000-100270000	Weak transcription	NHDF-Ad	bronchial
50	chr15:100261000-100268200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links