Variant report

Variant	rs55872459
Chromosome Location	chr10:28532063-28532064
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	TCF7L2	chr10:28531744-28532170	HepG2	liver:	n/a	n/a
2	EP300	chr10:28531817-28532155	HepG2	liver:	n/a	n/a
3	CEBPB	chr10:28531795-28532119	HepG2	liver:	n/a	n/a

Variant related genes	Relation type
MPP7	TF binding region

Extended variants
information (count: 14 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10508737	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16928617	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16928623	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16928649	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56311491	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56389449	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56413516	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74129034	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv917149	chr10:28018919-28688694	Enhancers Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv525448	chr10:28337570-28563732	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
3	nsv831817	chr10:28369836-28539930	Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Weak transcription Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv1041555	chr10:28419399-29304934	Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
5	nsv1037863	chr10:28419399-29378871	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
6	nsv540521	chr10:28419399-29378871	Flanking Active TSS Enhancers Weak transcription Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:28498200-28537000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
2	chr10:28519000-28552000	Weak transcription	Fetal Stomach	stomach
3	chr10:28521200-28538600	Weak transcription	Left Ventricle	heart
4	chr10:28521800-28544400	Weak transcription	Pancreas	Pancrea
5	chr10:28522400-28537000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr10:28524000-28537000	Weak transcription	Skeletal Muscle Female	skeletal muscle
7	chr10:28524200-28537000	Weak transcription	Esophagus	oesophagus
8	chr10:28524800-28536600	Weak transcription	HSMM	muscle
9	chr10:28525800-28537000	Weak transcription	Aorta	Aorta
10	chr10:28527600-28539600	Weak transcription	Duodenum Smooth Muscle	Duodenum
11	chr10:28530400-28532200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
12	chr10:28530400-28532600	Enhancers	Primary T killer memory cells from peripheral blood	blood
13	chr10:28530600-28532400	Enhancers	Primary T helper naive cells from peripheral blood	blood
14	chr10:28530600-28532400	Enhancers	Stomach Smooth Muscle	stomach
15	chr10:28530600-28532600	Enhancers	HepG2	liver
16	chr10:28530600-28532800	Enhancers	Primary T helper cells PMA-I stimulated	--
17	chr10:28530800-28533200	Enhancers	Primary monocytes fromperipheralblood	blood
18	chr10:28531000-28532600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
19	chr10:28531000-28532800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
20	chr10:28531000-28532800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
21	chr10:28531000-28532800	Enhancers	Monocytes-CD14+_RO01746	blood
22	chr10:28531000-28533200	Enhancers	Primary neutrophils fromperipheralblood	blood
23	chr10:28531200-28532400	Enhancers	Primary T helper cells fromperipheralblood	blood
24	chr10:28531200-28532600	Enhancers	Primary B cells from cord blood	blood
25	chr10:28531200-28532600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
26	chr10:28531400-28532400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
27	chr10:28531400-28532400	Enhancers	HMEC	breast
28	chr10:28531400-28532600	Enhancers	Primary T cells from cord blood	blood
29	chr10:28531400-28532600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
30	chr10:28531400-28533000	Enhancers	Primary hematopoietic stem cells	blood
31	chr10:28531600-28532400	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
32	chr10:28531800-28532400	Enhancers	Colon Smooth Muscle	Colon
33	chr10:28531800-28536800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
34	chr10:28531800-28537000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
35	chr10:28532000-28532400	Enhancers	Primary hematopoietic stem cells short term culture	blood

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