Variant report

Variant	rs12266257
Chromosome Location	chr10:99538687-99538688
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:99524037..99526896-chr10:99538605..99541496,2	MCF-7	breast:

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs11189364	0.85[ASN][1000 genomes]
rs11189365	0.85[ASN][1000 genomes]
rs11189370	0.85[ASN][1000 genomes]
rs11189371	0.85[ASN][1000 genomes]
rs12249137	0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12249138	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12264638	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12269197	0.85[ASN][1000 genomes]
rs13377035	0.85[ASN][1000 genomes]
rs1544178	0.85[ASN][1000 genomes]
rs17108378	0.85[ASN][1000 genomes]
rs1934562	0.96[ASN][1000 genomes]
rs2185365	0.96[ASN][1000 genomes]
rs28549815	0.91[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3750613	0.88[ASN][1000 genomes]
rs4378321	0.89[ASN][1000 genomes]
rs58554424	0.81[AFR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6584151	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6584152	0.87[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7097247	0.85[ASN][1000 genomes]
rs73324634	0.89[ASN][1000 genomes]
rs73324671	0.81[ASN][1000 genomes]
rs73324700	0.85[ASN][1000 genomes]
rs73326541	0.84[AFR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs946783	0.85[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	esv1817777	chr10:99196035-99558169	Weak transcription Flanking Active TSS Active TSS Enhancers Genic enhancers Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
2	nsv467441	chr10:99472710-99541104	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
3	nsv552026	chr10:99472710-99541104	Weak transcription Enhancers Transcr. at gene 5' and 3' Active TSS Genic enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:99532000-99540200	Weak transcription	Right Atrium	heart
2	chr10:99532800-99541000	Weak transcription	Gastric	stomach
3	chr10:99533600-99541400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr10:99537000-99538800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr10:99537000-99545600	Enhancers	Pancreas	Pancrea
6	chr10:99537200-99542600	Enhancers	Fetal Thymus	thymus
7	chr10:99537600-99541200	Weak transcription	Fetal Intestine Large	intestine
8	chr10:99537800-99540200	Weak transcription	Duodenum Mucosa	Duodenum
9	chr10:99538000-99538800	Enhancers	ES-WA7 Cell Line	embryonic stem cell
10	chr10:99538000-99538800	Enhancers	HUES48 Cell Line	embryonic stem cell
11	chr10:99538000-99538800	Enhancers	HUES6 Cell Line	embryonic stem cell
12	chr10:99538200-99538800	Enhancers	ES-I3 Cell Line	embryonic stem cell
13	chr10:99538200-99538800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
14	chr10:99538200-99538800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
15	chr10:99538200-99538800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
16	chr10:99538200-99538800	Bivalent Enhancer	Ganglion Eminence derived primary cultured neurospheres	brain
17	chr10:99538200-99538800	Enhancers	Fetal Muscle Leg	muscle
18	chr10:99538200-99539000	Enhancers	Fetal Muscle Trunk	muscle
19	chr10:99538400-99538800	Enhancers	H1 Cell Line	embryonic stem cell
20	chr10:99538400-99540000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
21	chr10:99538400-99540400	Strong transcription	Fetal Intestine Small	intestine
22	chr10:99538400-99540600	Weak transcription	HUES64 Cell Line	embryonic stem cell
23	chr10:99538600-99538800	Bivalent Enhancer	Brain Germinal Matrix	brain
24	chr10:99538600-99538800	Bivalent Enhancer	Fetal Brain Female	brain
25	chr10:99538600-99538800	Enhancers	HepG2	liver
26	chr10:99538600-99540000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
27	chr10:99538600-99540800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr10:99538600-99540800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
29	chr10:99538600-99540800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
30	chr10:99538600-99541000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
31	chr10:99538600-99541000	Weak transcription	Lung	lung
32	chr10:99538600-99541400	Weak transcription	H9 Cell Line	embryonic stem cell

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