Variant report

Variant	rs12260868
Chromosome Location	chr10:93300988-93300989
allele	A/G
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	EP300	chr10:93300381-93301107	Hela-S3	cervix:	n/a	n/a
2	TCF7L2	chr10:93300324-93302257	Hela-S3	cervix:	n/a	chr10:93301734-93301741 chr10:93301494-93301508
3	POLR2A	chr10:93300562-93301024	Hela-S3	cervix:	n/a	n/a
4	RCOR1	chr10:93300414-93301594	Hela-S3	cervix:	n/a	n/a
5	POLR2A	chr10:93300559-93301932	Hela-S3	cervix:	n/a	n/a
6	SMC3	chr10:93300354-93301046	Hela-S3	cervix:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:93300705..93303047-chr10:93391078..93393805,2	MCF-7	breast:
2	chr10:93297416..93300148-chr10:93300750..93302259,2	MCF-7	breast:

Variant related genes	Relation type
RPS27P1	TF binding region
ENSG00000119938	Chromatin interaction

Extended variants
information (count: 19 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10881918	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10881919	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11186608	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11186610	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11186611	0.83[EUR][1000 genomes]
rs12246270	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12246543	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12255223	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12256369	0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4933659	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4933660	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4933661	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4933662	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4933663	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs55753810	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs55785441	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs56007503	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7068979	0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs72819225	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:93296200-93312200	Weak transcription	Psoas Muscle	Psoas
2	chr10:93296600-93302000	Weak transcription	Skeletal Muscle Male	skeletal muscle
3	chr10:93297000-93301200	Weak transcription	Osteobl	bone
4	chr10:93297000-93311400	Weak transcription	Brain Cingulate Gyrus	brain
5	chr10:93297000-93311400	Weak transcription	Left Ventricle	heart
6	chr10:93297200-93301400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
7	chr10:93297200-93302000	Weak transcription	Fetal Kidney	kidney
8	chr10:93297600-93301800	Weak transcription	Ovary	ovary
9	chr10:93298400-93301200	Weak transcription	Liver	Liver
10	chr10:93299400-93311400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr10:93300000-93302800	Enhancers	Hela-S3	cervix
12	chr10:93300000-93304200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
13	chr10:93300000-93306600	Enhancers	Fetal Lung	lung
14	chr10:93300200-93301000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr10:93300200-93301200	Enhancers	Skeletal Muscle Female	skeletal muscle
16	chr10:93300200-93302200	Enhancers	GM12878-XiMat	blood
17	chr10:93300400-93301000	ZNF genes & repeats	Aorta	Aorta
18	chr10:93300400-93301000	Enhancers	HMEC	breast
19	chr10:93300400-93301600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
20	chr10:93300400-93302200	Enhancers	Fetal Stomach	stomach
21	chr10:93300600-93301000	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain
22	chr10:93300600-93301200	Strong transcription	Foreskin Melanocyte Primary Cells skin01	Skin
23	chr10:93300800-93301000	Weak transcription	Cortex derived primary cultured neurospheres	brain
24	chr10:93300800-93301000	ZNF genes & repeats	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr10:93300800-93301600	Enhancers	Dnd41	blood
26	chr10:93300800-93302600	Enhancers	Fetal Brain Male	brain
27	chr10:93300800-93302600	Enhancers	NHLF	lung
28	chr10:93300800-93302800	Enhancers	Fetal Muscle Trunk	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links