Variant report

Variant	rs12255058
Chromosome Location	chr10:25371360-25371361
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:25369500..25372471-chr10:25373482..25376338,3	MCF-7	breast:
2	chr10:25304278..25309002-chr10:25368191..25372754,5	K562	blood:
3	chr10:25305403..25308444-chr10:25369519..25373361,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000151023	Chromatin interaction
ENSG00000185875	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs12241589	0.89[AMR][1000 genomes]
rs12254923	0.89[AMR][1000 genomes]
rs12256751	0.96[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12262354	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12264258	0.91[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12266826	1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12269198	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7902870	0.97[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs7905401	0.96[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7907600	0.91[ASW][hapmap];0.97[LWK][hapmap];0.94[MKK][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs7916053	1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][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	nsv550224	chr10:25335854-25385858	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
2	nsv1036683	chr10:25337592-25398119	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases
3	nsv894969	chr10:25345720-25395579	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:25367600-25374200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr10:25368400-25371400	Enhancers	HepG2	liver
3	chr10:25368400-25371800	Weak transcription	Left Ventricle	heart
4	chr10:25369400-25373400	Enhancers	Breast Myoepithelial Primary Cells	Breast
5	chr10:25369400-25374000	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr10:25369600-25371400	Enhancers	Brain Hippocampus Middle	brain
7	chr10:25369800-25371400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
8	chr10:25369800-25372000	Enhancers	ES-I3 Cell Line	embryonic stem cell
9	chr10:25369800-25372000	Enhancers	Brain Inferior Temporal Lobe	brain
10	chr10:25369800-25372000	Enhancers	Colon Smooth Muscle	Colon
11	chr10:25369800-25373000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr10:25369800-25373000	Enhancers	Ovary	ovary
13	chr10:25369800-25373400	Enhancers	Brain Anterior Caudate	brain
14	chr10:25369800-25373400	Enhancers	Brain Cingulate Gyrus	brain
15	chr10:25369800-25373800	Enhancers	Brain Angular Gyrus	brain
16	chr10:25370000-25371400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr10:25370000-25371400	Weak transcription	HUES6 Cell Line	embryonic stem cell
18	chr10:25370000-25374800	Weak transcription	K562	blood
19	chr10:25370400-25371400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
20	chr10:25370400-25371400	Weak transcription	HUES64 Cell Line	embryonic stem cell
21	chr10:25370400-25371400	Weak transcription	Aorta	Aorta
22	chr10:25370400-25371600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
23	chr10:25370400-25371600	Weak transcription	HUES48 Cell Line	embryonic stem cell
24	chr10:25370400-25372000	Enhancers	Muscle Satellite Cultured Cells	--
25	chr10:25370400-25372000	Enhancers	Osteobl	bone
26	chr10:25370600-25372800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
27	chr10:25370600-25373000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
28	chr10:25370600-25374400	Weak transcription	A549	lung
29	chr10:25370800-25371800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
30	chr10:25370800-25371800	Weak transcription	Fetal Muscle Leg	muscle
31	chr10:25371000-25371400	Enhancers	Brain Substantia Nigra	brain
32	chr10:25371000-25371800	Weak transcription	Lung	lung
33	chr10:25371000-25372000	Flanking Active TSS	Fetal Heart	heart
34	chr10:25371000-25372600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
35	chr10:25371200-25371600	Enhancers	iPS-20b Cell Line	embryonic stem cell
36	chr10:25371200-25372000	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr10:25371200-25372000	Enhancers	iPS-15b Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links