Variant report

Variant	rs7100005
Chromosome Location	chr10:25262238-25262239
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:25258984..25265341-chr10:25266551..25271124,6	MCF-7	breast:
2	chr10:25245687..25248875-chr10:25261943..25265245,3	MCF-7	breast:
3	chr10:25240544..25243319-chr10:25261607..25263719,3	K562	blood:
4	chr10:25240544..25243319-chr10:25261607..25263719,2	K562	blood:

Variant related genes	Relation type
ENSG00000273107	Chromatin interaction
ENSG00000099256	Chromatin interaction

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10828735	1.00[JPT][hapmap]
rs11014282	0.83[ASN][1000 genomes]
rs12255703	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12256206	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12257709	0.83[ASN][1000 genomes]
rs1409306	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs16925135	0.83[ASN][1000 genomes]
rs16925138	0.83[ASN][1000 genomes]
rs16925145	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2220708	1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs4504964	1.00[ASN][1000 genomes]
rs57654443	0.97[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs57681668	0.97[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs59876862	1.00[ASN][1000 genomes]
rs61854283	0.83[ASN][1000 genomes]
rs6482453	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6482454	1.00[ASN][1000 genomes]
rs6482455	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6482465	1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs7072126	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7075926	0.97[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs7078660	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7080496	0.83[ASN][1000 genomes]
rs7084900	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7087994	1.00[JPT][hapmap]
rs729141	1.00[JPT][hapmap]
rs73606586	1.00[ASN][1000 genomes]
rs73606590	1.00[ASN][1000 genomes]
rs73606602	1.00[ASN][1000 genomes]
rs73608205	0.94[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7905478	1.00[ASN][1000 genomes]
rs7910241	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7918015	1.00[ASN][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	nsv1053278	chr10:25140776-25269093	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:25249200-25263800	Weak transcription	Ovary	ovary
2	chr10:25251000-25263800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
3	chr10:25253200-25264000	Weak transcription	Cortex derived primary cultured neurospheres	brain
4	chr10:25256400-25264400	Weak transcription	Gastric	stomach
5	chr10:25259000-25263800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr10:25259200-25264200	Weak transcription	Brain Substantia Nigra	brain
7	chr10:25259200-25269000	Weak transcription	Brain Anterior Caudate	brain
8	chr10:25259400-25263400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr10:25259400-25263400	Weak transcription	Osteobl	bone
10	chr10:25259400-25263800	Weak transcription	Brain Cingulate Gyrus	brain
11	chr10:25259600-25263200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
12	chr10:25261600-25262400	Enhancers	NHDF-Ad	bronchial
13	chr10:25261800-25262800	Enhancers	Breast Myoepithelial Primary Cells	Breast
14	chr10:25261800-25264200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr10:25262000-25262400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr10:25262000-25262400	Enhancers	Brain Hippocampus Middle	brain
17	chr10:25262000-25262400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
18	chr10:25262000-25262400	Enhancers	Fetal Lung	lung
19	chr10:25262000-25262400	Enhancers	HMEC	breast
20	chr10:25262200-25262400	Enhancers	Fetal Stomach	stomach
21	chr10:25262200-25262400	Enhancers	Placenta Amnion	Placenta Amnion
22	chr10:25262200-25262400	Enhancers	HepG2	liver
23	chr10:25262200-25263000	Enhancers	Fetal Muscle Leg	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links