Variant report

Variant	rs17125887
Chromosome Location	chr12:51909760-51909761
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr12:51909336..51911750-chr4:3486432..3488829,2	MCF-7	breast:
2	chr12:51905089..51908082-chr12:51909563..51911843,2	K562	blood:

Variant related genes	Relation type
ENSG00000175920	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs17125750	1.00[AMR][1000 genomes]
rs17125765	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17125848	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17125861	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57240461	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59873570	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs767336	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs873674	0.83[AFR][1000 genomes];1.00[AMR][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	nsv1038285	chr12:51762953-51916723	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:51854600-51914200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr12:51865600-51914600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
3	chr12:51870000-51912600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
4	chr12:51899600-51914200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr12:51900400-51912600	Weak transcription	Primary B cells from peripheral blood	blood
6	chr12:51902400-51918200	Weak transcription	Pancreas	Pancrea
7	chr12:51903600-51925600	Weak transcription	Fetal Brain Male	brain
8	chr12:51903800-51913000	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr12:51904000-51914200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
10	chr12:51905000-51914000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
11	chr12:51905200-51913800	Weak transcription	Dnd41	blood
12	chr12:51905400-51914200	Weak transcription	Primary T cells from cord blood	blood
13	chr12:51906200-51915600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr12:51906200-51918200	Weak transcription	Brain Cingulate Gyrus	brain
15	chr12:51906400-51911000	Weak transcription	Brain Anterior Caudate	brain
16	chr12:51906400-51913600	Weak transcription	Brain Hippocampus Middle	brain
17	chr12:51906400-51915200	Weak transcription	Brain Inferior Temporal Lobe	brain
18	chr12:51906800-51911000	Weak transcription	Brain Substantia Nigra	brain
19	chr12:51909200-51912000	Strong transcription	Brain Germinal Matrix	brain
20	chr12:51909400-51909800	Enhancers	Brain Angular Gyrus	brain
21	chr12:51909600-51910600	Strong transcription	Fetal Brain Female	brain

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