Variant report

Variant	rs6803886
Chromosome Location	chr3:157000855-157000856
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	JUN	chr3:157000099-157000986	HUVEC	blood vessel:	n/a	chr3:157000306-157000316 chr3:157000512-157000522 chr3:157000306-157000316 chr3:157000306-157000316 chr3:157000511-157000523
2	JUND	chr3:156999889-157000942	SK-N-SH	brain:	n/a	chr3:157000306-157000316 chr3:157000512-157000522 chr3:157000306-157000316 chr3:157000306-157000316 chr3:157000511-157000523
3	PBX3	chr3:156999890-157001264	SK-N-SH	brain:	n/a	n/a
4	FOS	chr3:156999975-157001211	HUVEC	blood vessel:	n/a	chr3:157000306-157000316 chr3:157000512-157000522 chr3:157000306-157000316 chr3:157000306-157000316 chr3:157000511-157000523
5	GATA2	chr3:156999999-157001026	HUVEC	blood vessel:	n/a	chr3:157000511-157000518 chr3:157000809-157000819
6	TCF12	chr3:156999947-157001056	SK-N-SH	brain:	n/a	n/a
7	NFIC	chr3:156999944-157001007	SK-N-SH	brain:	n/a	n/a
8	POLR2A	chr3:157000418-157001040	SK-N-MC	brain:	n/a	n/a
9	POLR2A	chr3:156999735-157001231	HUVEC	blood vessel:	n/a	n/a
10	GATA3	chr3:156999923-157001268	SK-N-SH	brain:	n/a	chr3:157000511-157000518 chr3:157000809-157000819
11	GATA3	chr3:157000041-157001107	SK-N-SH	brain:	n/a	chr3:157000511-157000518 chr3:157000809-157000819
12	TCF12	chr3:156999907-157001113	SK-N-SH	brain:	n/a	n/a
13	FOSL2	chr3:156999982-157001048	SK-N-SH	brain:	n/a	chr3:157000306-157000316 chr3:157000512-157000522 chr3:157000306-157000316 chr3:157000306-157000316 chr3:157000511-157000523
14	STAT3	chr3:157000093-157000983	MCF10A-Er-Src	breast:	n/a	chr3:157000206-157000215
15	POLR2A	chr3:156999928-157000950	HUVEC	blood vessel:	n/a	n/a
16	JUND	chr3:156999959-157000966	SK-N-SH	brain:	n/a	chr3:157000306-157000316 chr3:157000512-157000522 chr3:157000306-157000316 chr3:157000306-157000316 chr3:157000511-157000523
17	EP300	chr3:156999852-157001161	SK-N-SH	brain:	n/a	chr3:157000854-157000868

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:156999731..157001800-chr3:157004485..157007413,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000243176	TF binding region

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10428149	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10936082	0.95[CEU][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11709487	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12489852	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12490031	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12491378	0.95[CEU][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes]
rs12496692	0.84[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs1500926	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17388505	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1915952	0.90[YRI][hapmap]
rs2305621	0.86[CEU][hapmap]
rs34650246	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56003856	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs56375731	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61068670	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs61473987	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs62279638	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs62279639	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs62279641	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62281371	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62281372	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62281373	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6441125	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs67643214	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6769039	1.00[CEU][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6793166	1.00[CEU][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73154694	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7618171	0.95[CEU][hapmap];1.00[JPT][hapmap]
rs9864194	1.00[CEU][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv829766	chr3:156811536-157020551	Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	144 gene(s)	inside rSNPs	diseases
2	nsv877687	chr3:156924793-157044184	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:156967200-157007800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr3:156988000-157005800	Weak transcription	Pancreas	Pancrea
3	chr3:156997000-157001000	Enhancers	Osteobl	bone
4	chr3:156997000-157004400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr3:156997600-157003600	Weak transcription	K562	blood
6	chr3:156998400-157001800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr3:156998800-157002000	Enhancers	NHLF	lung
8	chr3:156998800-157006000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
9	chr3:156999600-157001200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
10	chr3:156999600-157001200	Enhancers	HSMM	muscle
11	chr3:156999600-157003800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr3:157000000-157001200	Enhancers	NHEK	skin
13	chr3:157000000-157001600	Enhancers	NH-A	brain
14	chr3:157000200-157001000	Enhancers	Monocytes-CD14+_RO01746	blood
15	chr3:157000200-157001600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
16	chr3:157000400-157001000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr3:157000400-157001200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
18	chr3:157000400-157001200	Enhancers	Adipose Nuclei	Adipose
19	chr3:157000400-157001400	Flanking Active TSS	HUVEC	blood vessel
20	chr3:157000600-157001800	Flanking Active TSS	Muscle Satellite Cultured Cells	--
21	chr3:157000600-157003000	Weak transcription	Fetal Stomach	stomach
22	chr3:157000600-157004000	Enhancers	NHDF-Ad	bronchial
23	chr3:157000600-157015400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
24	chr3:157000800-157001200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
25	chr3:157000800-157001600	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
26	chr3:157000800-157004000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links