Variant report

Variant	rs10252771
Chromosome Location	chr7:117496890-117496891
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr7:117488313..117490003-chr7:117495202..117498035,2	MCF-7	breast:
2	chr7:117488843..117491643-chr7:117493706..117497041,3	K562	blood:
3	7:115847372-115857098..7:117493134-117497089	Hela-S3	cervix:

Variant related genes	Relation type
ENSG00000135269	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10244364	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10259910	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10263711	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10267771	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10276758	0.82[EUR][1000 genomes]
rs10487380	0.82[EUR][1000 genomes]
rs1156954	0.84[CEU][hapmap]
rs13239186	0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34031516	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34212554	0.92[ASN][1000 genomes]
rs34298216	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34564710	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs34729439	0.81[EUR][1000 genomes]
rs6952555	0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6961907	0.83[EUR][1000 genomes]
rs6976111	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs727164	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7776980	0.96[CEU][hapmap];0.83[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7782815	0.81[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869971	chr7:117420583-118274149	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:40 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:117469000-117503600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr7:117469400-117503800	Weak transcription	Cortex derived primary cultured neurospheres	brain
3	chr7:117469600-117511800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr7:117475600-117506600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
5	chr7:117476000-117501000	Weak transcription	Fetal Stomach	stomach
6	chr7:117476200-117497200	Weak transcription	HUES64 Cell Line	embryonic stem cell
7	chr7:117478400-117502600	Weak transcription	Pancreas	Pancrea
8	chr7:117481600-117502000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
9	chr7:117483800-117501000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr7:117484200-117503800	Weak transcription	Fetal Kidney	kidney
11	chr7:117484400-117501000	Weak transcription	Adipose Nuclei	Adipose
12	chr7:117484400-117510800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr7:117484800-117503600	Weak transcription	Aorta	Aorta
14	chr7:117485000-117501000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr7:117485200-117499400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
16	chr7:117489400-117503800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr7:117489400-117511800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
18	chr7:117489800-117498600	Weak transcription	H1 Cell Line	embryonic stem cell
19	chr7:117489800-117499600	Weak transcription	NHLF	lung
20	chr7:117490400-117498600	Weak transcription	HUES48 Cell Line	embryonic stem cell
21	chr7:117490400-117508000	Weak transcription	H9 Cell Line	embryonic stem cell
22	chr7:117490400-117508000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
23	chr7:117491200-117502000	Weak transcription	Fetal Heart	heart
24	chr7:117493200-117502000	Weak transcription	Brain Anterior Caudate	brain
25	chr7:117493400-117499600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
26	chr7:117494200-117501800	Weak transcription	Brain Inferior Temporal Lobe	brain
27	chr7:117494200-117502000	Weak transcription	Brain Cingulate Gyrus	brain
28	chr7:117494600-117501400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
29	chr7:117494600-117501400	Weak transcription	Fetal Brain Male	brain
30	chr7:117495000-117502000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
31	chr7:117495200-117501000	Weak transcription	Brain Hippocampus Middle	brain
32	chr7:117495800-117503600	Weak transcription	HUES6 Cell Line	embryonic stem cell
33	chr7:117496000-117497200	Enhancers	Fetal Lung	lung
34	chr7:117496400-117499200	Weak transcription	Brain Germinal Matrix	brain
35	chr7:117496400-117499400	Weak transcription	Fetal Brain Female	brain
36	chr7:117496400-117503800	Weak transcription	Stomach Smooth Muscle	stomach
37	chr7:117496600-117498600	Weak transcription	Brain Substantia Nigra	brain
38	chr7:117496600-117501600	Weak transcription	Fetal Intestine Small	intestine
39	chr7:117496600-117502000	Weak transcription	Brain Angular Gyrus	brain
40	chr7:117496800-117502000	Strong transcription	iPS-20b Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links