Variant report

Variant	rs28635032
Chromosome Location	chr15:72868374-72868375
allele	G/T
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	STAT3	chr15:72868257-72868457	MCF10A-Er-Src	breast:	n/a	n/a
2	POLR2A	chr15:72868262-72868414	Gliobla	brain:	n/a	n/a
3	POLR2A	chr15:72868296-72868487	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:72765119..72768565-chr15:72866514..72869188,4	MCF-7	breast:
2	chr15:72867565..72869086-chr15:72877556..72879281,2	MCF-7	breast:

Variant related genes	Relation type
ARIH1	TF binding region
ENSG00000166233	Chromatin interaction
ENSG00000261423	Chromatin interaction

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs12324257	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13329347	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2577576	1.00[AMR][1000 genomes]
rs28396210	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28413514	1.00[AMR][1000 genomes]
rs28418777	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28451211	1.00[AMR][1000 genomes]
rs28451625	1.00[AMR][1000 genomes]
rs28463280	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28483407	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28575504	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28575961	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28667912	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28687667	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28734818	1.00[AMR][1000 genomes]
rs28869264	0.84[AFR][1000 genomes]
rs74021506	1.00[AMR][1000 genomes]
rs74022835	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74024328	1.00[AMR][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	nsv534037	chr15:72659210-72964029	Weak transcription Genic enhancers Active TSS Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
2	nsv569947	chr15:72800853-72878772	Strong transcription Weak transcription ZNF genes & repeats Enhancers Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv569948	chr15:72811402-72878772	Weak transcription ZNF genes & repeats Enhancers Strong transcription Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region miRNA target site	8 gene(s)	inside rSNPs	diseases
4	esv2758386	chr15:72819785-73120560	Strong transcription ZNF genes & repeats Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
5	esv2760039	chr15:72819785-73120560	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
6	nsv428307	chr15:72819785-73120560	Strong transcription Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Enhancers Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
7	esv3430383	chr15:72821093-73035167	Strong transcription Enhancers Flanking Bivalent TSS/Enh Weak transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
8	nsv521972	chr15:72859770-72878772	ZNF genes & repeats Strong transcription Weak transcription Genic enhancers Enhancers	TF binding region CpG island Chromatin interactive region miRNA target site	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:72828600-72869800	Weak transcription	Aorta	Aorta
2	chr15:72829200-72880800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr15:72833600-72870200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr15:72833600-72870400	Weak transcription	Gastric	stomach
5	chr15:72835200-72876000	Weak transcription	Pancreas	Pancrea
6	chr15:72835600-72870400	Weak transcription	Spleen	Spleen
7	chr15:72836600-72870000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr15:72838800-72870400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
9	chr15:72841000-72909000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
10	chr15:72844400-72870000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chr15:72844600-72870400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr15:72846600-72868600	Strong transcription	Primary T helper cells fromperipheralblood	blood
13	chr15:72846600-72878400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
14	chr15:72846800-72870200	Weak transcription	H9 Cell Line	embryonic stem cell
15	chr15:72847000-72878400	Strong transcription	Primary T cells fromperipheralblood	blood
16	chr15:72847200-72870000	Strong transcription	HUES64 Cell Line	embryonic stem cell
17	chr15:72847800-72878000	Strong transcription	Primary B cells from peripheral blood	blood
18	chr15:72847800-72878400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
19	chr15:72849000-72870200	Weak transcription	Fetal Brain Male	brain
20	chr15:72850200-72880800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr15:72851400-72877600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
22	chr15:72851800-72868600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
23	chr15:72852000-72878800	Strong transcription	Placenta	Placenta
24	chr15:72852600-72870800	Strong transcription	HUES48 Cell Line	embryonic stem cell
25	chr15:72852800-72868600	Strong transcription	iPS-18 Cell Line	embryonic stem cell
26	chr15:72852800-72878400	Strong transcription	Primary T helper cells PMA-I stimulated	--
27	chr15:72853000-72872600	Weak transcription	Stomach Mucosa	stomach
28	chr15:72853600-72879800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr15:72853800-72868600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr15:72854200-72870600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
31	chr15:72854400-72879400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
32	chr15:72854800-72869800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
33	chr15:72855000-72871200	Weak transcription	Brain Hippocampus Middle	brain
34	chr15:72855200-72878400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
35	chr15:72855800-72879800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
36	chr15:72856000-72876000	Weak transcription	Esophagus	oesophagus
37	chr15:72857000-72871400	Strong transcription	Adipose Nuclei	Adipose
38	chr15:72857400-72873000	Weak transcription	NHLF	lung
39	chr15:72857400-72878400	Strong transcription	Primary monocytes fromperipheralblood	blood
40	chr15:72857400-72881000	Strong transcription	Monocytes-CD14+_RO01746	blood
41	chr15:72857800-72870000	Weak transcription	Brain Germinal Matrix	brain
42	chr15:72857800-72870400	Weak transcription	Small Intestine	intestine
43	chr15:72858200-72878600	Strong transcription	HUES6 Cell Line	embryonic stem cell
44	chr15:72858400-72868400	Strong transcription	Primary B cells from cord blood	blood
45	chr15:72858400-72878200	Strong transcription	Primary T cells from cord blood	blood
46	chr15:72858800-72871200	Strong transcription	Fetal Muscle Leg	muscle
47	chr15:72859200-72880000	Strong transcription	Liver	Liver
48	chr15:72860000-72870400	Weak transcription	Pancreatic Islets	Pancreatic Islet
49	chr15:72860000-72871200	Weak transcription	Psoas Muscle	Psoas
50	chr15:72860200-72870000	Weak transcription	Brain Substantia Nigra	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links