Variant report

Variant	rs822502
Chromosome Location	chr1:155895155-155895156
allele	C/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	POLR2A	chr1:155895022-155895689	K562	blood:	n/a	n/a
2	POLR2A	chr1:155894902-155895299	K562	blood:	n/a	n/a
3	POLR2A	chr1:155895101-155895601	GM12892	blood:	n/a	n/a
4	POLR2A	chr1:155895152-155895240	ProgFib	skin:	n/a	n/a
5	POLR2A	chr1:155895121-155895678	K562	blood:	n/a	n/a
6	POLR2A	chr1:155895030-155895873	PFSK-1	brain:	n/a	n/a
7	POLR2A	chr1:155893791-155895596	HepG2	liver:	n/a	n/a
8	POLR2A	chr1:155895128-155895693	SK-N-MC	brain:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:155893064..155900339-chr1:155902644..155906758,10	MCF-7	breast:

Variant related genes	Relation type
KIAA0907	TF binding region
ENSG00000132680	Chromatin interaction

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs1010033	0.88[AFR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1018730	0.99[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1055184	0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10908485	0.91[EUR][1000 genomes]
rs1094558	0.83[AFR][1000 genomes]
rs11264421	0.85[EUR][1000 genomes]
rs12039053	0.98[AFR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12129384	0.91[AFR][1000 genomes]
rs12138833	0.98[AFR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12747344	0.89[EUR][1000 genomes]
rs1749407	0.83[EUR][1000 genomes]
rs1749409	0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1765275	0.91[EUR][1000 genomes]
rs1964951	0.87[EUR][1000 genomes]
rs2275071	0.90[ASN][1000 genomes]
rs2275079	0.99[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2275081	0.99[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2364402	0.88[AFR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2364404	0.88[AFR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs28379575	0.98[AFR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2886069	0.98[AFR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs34802187	0.89[EUR][1000 genomes]
rs35374730	0.89[EUR][1000 genomes]
rs35730001	0.87[EUR][1000 genomes]
rs3738587	0.81[ASN][1000 genomes]
rs3768280	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4412586	0.97[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4661160	0.98[AFR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4661162	0.88[AFR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4661170	0.89[EUR][1000 genomes]
rs4661172	0.86[AFR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs493446	0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs506688	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs527113	0.98[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs536870	0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs572609	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs605025	0.91[EUR][1000 genomes]
rs6660802	0.99[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6667096	0.99[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs708614	0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs71628697	0.91[EUR][1000 genomes]
rs822503	0.88[AFR][1000 genomes];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs822653	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv33869	chr1:155223283-155917961	Flanking Active TSS Strong transcription Weak transcription Active TSS Bivalent/Poised TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	187 gene(s)	inside rSNPs	diseases
2	esv3423892	chr1:155664084-155901487	Flanking Active TSS Weak transcription Enhancers Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
3	nsv916198	chr1:155804210-156403997	Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	428 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	chr1:155881800-155898800	Strong transcription	HUVEC	blood vessel
2	chr1:155881800-155899800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
3	chr1:155881800-155900600	Strong transcription	Fetal Muscle Leg	muscle
4	chr1:155881800-155901200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
5	chr1:155881800-155901200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
6	chr1:155882000-155898800	Strong transcription	NH-A	brain
7	chr1:155882000-155899400	Strong transcription	Fetal Intestine Large	intestine
8	chr1:155882000-155899800	Strong transcription	Primary T cells fromperipheralblood	blood
9	chr1:155882000-155900000	Strong transcription	Primary T helper cells PMA-I stimulated	--
10	chr1:155882000-155900000	Strong transcription	Liver	Liver
11	chr1:155882000-155900200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
12	chr1:155882000-155900400	Strong transcription	Primary B cells from cord blood	blood
13	chr1:155882000-155900600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
14	chr1:155882000-155900600	Strong transcription	Fetal Muscle Trunk	muscle
15	chr1:155882000-155900600	Strong transcription	Placenta	Placenta
16	chr1:155882000-155900600	Strong transcription	Fetal Stomach	stomach
17	chr1:155882000-155900600	Strong transcription	Left Ventricle	heart
18	chr1:155882000-155900800	Strong transcription	Thymus	Thymus
19	chr1:155882000-155901000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
20	chr1:155882000-155901400	Strong transcription	HUES6 Cell Line	embryonic stem cell
21	chr1:155882000-155901400	Strong transcription	Monocytes-CD14+_RO01746	blood
22	chr1:155882200-155898600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
23	chr1:155882200-155900200	Strong transcription	Duodenum Smooth Muscle	Duodenum
24	chr1:155882200-155900600	Strong transcription	Fetal Thymus	thymus
25	chr1:155882200-155901000	Strong transcription	HUES48 Cell Line	embryonic stem cell
26	chr1:155882200-155901000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
27	chr1:155882200-155901200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
28	chr1:155882200-155901400	Strong transcription	HUES64 Cell Line	embryonic stem cell
29	chr1:155882200-155901400	Strong transcription	Primary monocytes fromperipheralblood	blood
30	chr1:155882200-155901400	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
31	chr1:155882200-155903000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
32	chr1:155882400-155898800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
33	chr1:155882400-155900000	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
34	chr1:155882400-155900000	Strong transcription	Primary T helper cells fromperipheralblood	blood
35	chr1:155882400-155900000	Strong transcription	Adipose Nuclei	Adipose
36	chr1:155882400-155900200	Strong transcription	Primary B cells from peripheral blood	blood
37	chr1:155882600-155898800	Strong transcription	Duodenum Mucosa	Duodenum
38	chr1:155882600-155899000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
39	chr1:155882600-155899000	Strong transcription	NHEK	skin
40	chr1:155882600-155900200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
41	chr1:155882600-155900200	Strong transcription	Skeletal Muscle Female	skeletal muscle
42	chr1:155882600-155901600	Strong transcription	iPS-15b Cell Line	embryonic stem cell
43	chr1:155882600-155901600	Strong transcription	iPS-18 Cell Line	embryonic stem cell
44	chr1:155882800-155897400	Strong transcription	Fetal Brain Female	brain
45	chr1:155882800-155897400	Strong transcription	Skeletal Muscle Male	skeletal muscle
46	chr1:155882800-155897800	Strong transcription	A549	lung
47	chr1:155882800-155899400	Strong transcription	Muscle Satellite Cultured Cells	--
48	chr1:155882800-155899400	Strong transcription	GM12878-XiMat	blood
49	chr1:155882800-155901400	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
50	chr1:155882800-155901600	Strong transcription	H1 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links