Variant report

Variant	rs12550345
Chromosome Location	chr8:125153198-125153199
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:23)
CpG islands
(count:0)
Chromatin interactive
region (count:2)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:23 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr8:125152767-125153510	K562	blood:	n/a	n/a
2	POU2F2	chr8:125152878-125153265	GM12891	blood:	n/a	n/a
3	POLR2A	chr8:125152645-125153359	U87	brain:	n/a	n/a
4	TAF7	chr8:125152760-125153306	K562	blood:	n/a	n/a
5	POLR2A	chr8:125152790-125153347	U87	brain:	n/a	n/a
6	POLR2A	chr8:125152801-125153225	HCT-116	colon:	n/a	n/a
7	ZNF384	chr8:125153099-125153265	K562	blood:	n/a	n/a
8	PML	chr8:125152850-125153201	K562	blood:	n/a	n/a
9	POLR2A	chr8:125152790-125153208	HCT-116	colon:	n/a	n/a
10	POLR2A	chr8:125152833-125153220	ECC-1	luminal epithelium:	n/a	n/a
11	HEY1	chr8:125152794-125153592	K562	blood:	n/a	n/a
12	POLR2A	chr8:125152999-125153314	K562	blood:	n/a	n/a
13	POLR2A	chr8:125152645-125153304	U87	brain:	n/a	n/a
14	POLR2A	chr8:125152670-125153302	K562	blood:	n/a	n/a
15	POLR2A	chr8:125152719-125153347	U87	brain:	n/a	n/a
16	PML	chr8:125152742-125153324	K562	blood:	n/a	n/a
17	POLR2A	chr8:125152808-125153335	K562	blood:	n/a	n/a
18	POLR2A	chr8:125152851-125153282	GM12891	blood:	n/a	n/a
19	POLR2A	chr8:125152756-125153338	K562	blood:	n/a	n/a
20	POLR2A	chr8:125152859-125153242	H1-hESC	embryonic stem cell:	n/a	n/a
21	POLR2A	chr8:125152617-125153291	H1-hESC	embryonic stem cell:	n/a	n/a
22	POLR2A	chr8:125152782-125153223	Hela-S3	cervix:	n/a	n/a
23	POLR2A	chr8:125152844-125153201	GM12891	blood:	n/a	n/a

No data

(count:2 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr8:125151766..125155460-chr8:125383526..125385815,4	MCF-7	breast:
2	chr8:125148218..125150368-chr8:125150810..125153533,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000250727	TF binding region
ENSG00000164983	Chromatin interaction

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10086895	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10097532	0.86[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10102628	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10103694	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10112410	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10956166	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11778782	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12550369	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13251319	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13251598	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13252427	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13257056	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13258556	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13278430	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4242354	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4242355	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4242356	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4265167	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4338088	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4363179	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4380915	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4389915	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4413755	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4413756	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4415293	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4431575	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4431576	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4434603	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4437631	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4454257	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4455808	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4574828	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4574829	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4613979	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4871463	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4871464	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4871465	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6470223	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6470224	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6470225	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6986145	0.86[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6998116	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6998145	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7010103	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7010277	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7014933	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7015097	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7015444	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7818609	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7826680	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7833371	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9297686	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv612144	chr8:125057728-125206503	Enhancers Weak transcription Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv1023183	chr8:125060532-125206445	Enhancers Weak transcription Genic enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv948556	chr8:125067187-125204721	Enhancers Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv831452	chr8:125099708-125259926	Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:125150400-125165600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr8:125151200-125153200	Weak transcription	NH-A	brain
3	chr8:125151200-125153400	Weak transcription	Rectal Mucosa Donor 29	rectum
4	chr8:125151200-125153400	Weak transcription	Osteobl	bone
5	chr8:125151200-125153600	Weak transcription	Placenta Amnion	Placenta Amnion
6	chr8:125151200-125153800	Weak transcription	Right Atrium	heart
7	chr8:125151200-125154600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr8:125151200-125154800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr8:125151200-125157800	Weak transcription	Stomach Mucosa	stomach
10	chr8:125151200-125160000	Weak transcription	Fetal Intestine Small	intestine
11	chr8:125151400-125154000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
12	chr8:125151400-125158000	Weak transcription	Cortex derived primary cultured neurospheres	brain
13	chr8:125151400-125159200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr8:125151600-125154000	Weak transcription	Placenta	Placenta
15	chr8:125151800-125153800	Enhancers	Pancreatic Islets	Pancreatic Islet
16	chr8:125151800-125154000	Enhancers	A549	lung
17	chr8:125151800-125157000	Weak transcription	Pancreas	Pancrea
18	chr8:125152400-125154200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr8:125152400-125154200	Enhancers	Primary monocytes fromperipheralblood	blood
20	chr8:125152600-125154400	Enhancers	Primary hematopoietic stem cells short term culture	blood
21	chr8:125152600-125154400	Enhancers	NHDF-Ad	bronchial
22	chr8:125152800-125153200	Weak transcription	Fetal Heart	heart
23	chr8:125152800-125153400	Enhancers	Primary B cells from cord blood	blood
24	chr8:125152800-125153800	Enhancers	Primary B cells from peripheral blood	blood
25	chr8:125152800-125154000	Enhancers	GM12878-XiMat	blood
26	chr8:125152800-125154200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
27	chr8:125152800-125154200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
28	chr8:125152800-125154200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
29	chr8:125152800-125154200	Enhancers	Monocytes-CD14+_RO01746	blood
30	chr8:125153000-125153800	Enhancers	Primary hematopoietic stem cells	blood
31	chr8:125153000-125154200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links