Variant report

Variant	rs10202809
Chromosome Location	chr2:151025960-151025961
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	CEBPB	chr2:151025407-151026111	A549	lung:	n/a	chr2:151025439-151025450
2	CREB1	chr2:151025712-151026017	A549	lung:	n/a	n/a
3	FOSL2	chr2:151025311-151026123	A549	lung:	n/a	chr2:151025471-151025480 chr2:151025472-151025481 chr2:151025472-151025480 chr2:151025473-151025480 chr2:151025470-151025482
4	TCF12	chr2:151024963-151026067	SK-N-SH	brain:	n/a	n/a
5	NR3C1	chr2:151025785-151026068	A549	lung:	n/a	n/a
6	MAX	chr2:151025599-151026238	A549	lung:	n/a	n/a
7	FOXA2	chr2:151025797-151026046	A549	lung:	n/a	n/a
8	FOS	chr2:151025845-151025975	MCF10A-Er-Src	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr2:151019127..151021972-chr2:151024346..151026624,2	K562	blood:
2	chr2:151024105..151026870-chr2:151120233..151122729,2	MCF-7	breast:
3	chr2:151025085..151027146-chr2:151027265..151029673,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000230645	TF binding region
ENSG00000230645	Chromatin interaction

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs10174406	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11681646	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11693323	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1374158	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4667378	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62169964	0.83[ASN][1000 genomes]
rs6707784	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6738373	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1005441	chr2:150457624-151060247	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
2	nsv995119	chr2:150556150-151294696	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
3	nsv1001838	chr2:150819672-151745876	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
4	nsv535980	chr2:150819672-151745876	Enhancers Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
5	nsv469524	chr2:150927500-151076920	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	nsv834412	chr2:151014270-151116638	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
7	nsv583294	chr2:151022044-151037893	Weak transcription Active TSS Enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 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	chr2:151021800-151026200	Enhancers	NH-A	brain
2	chr2:151021800-151026800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
3	chr2:151022200-151026000	Enhancers	HMEC	breast
4	chr2:151022200-151026400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr2:151022200-151026400	Enhancers	Osteobl	bone
6	chr2:151022600-151026400	Enhancers	Muscle Satellite Cultured Cells	--
7	chr2:151023200-151026000	Weak transcription	Aorta	Aorta
8	chr2:151023200-151026000	Weak transcription	Pancreas	Pancrea
9	chr2:151023200-151026200	Enhancers	Hela-S3	cervix
10	chr2:151023400-151026000	Enhancers	Liver	Liver
11	chr2:151024000-151026400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr2:151024000-151026400	Enhancers	NHDF-Ad	bronchial
13	chr2:151024000-151026800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr2:151024200-151026000	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
15	chr2:151024200-151026000	Enhancers	NHLF	lung
16	chr2:151024200-151026200	Enhancers	Stomach Mucosa	stomach
17	chr2:151024200-151026400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr2:151024800-151026000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr2:151024800-151026400	Enhancers	A549	lung
20	chr2:151025000-151026000	Weak transcription	Dnd41	blood
21	chr2:151025200-151026600	Enhancers	Colon Smooth Muscle	Colon
22	chr2:151025400-151026400	Enhancers	Adipose Nuclei	Adipose
23	chr2:151025400-151030600	Weak transcription	HUVEC	blood vessel
24	chr2:151025600-151026200	Enhancers	Fetal Intestine Large	intestine
25	chr2:151025600-151026200	Weak transcription	Rectal Smooth Muscle	rectum
26	chr2:151025800-151026200	Enhancers	Stomach Smooth Muscle	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links