Variant report

Variant	rs10877032
Chromosome Location	chr12:58270791-58270792
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr12:58259629..58265686-chr12:58266089..58272179,8	K562	blood:
2	chr12:58269021..58271713-chr12:58278735..58281292,2	MCF-7	breast:
3	chr12:58262266..58264852-chr12:58270449..58272179,2	K562	blood:

Extended variants
information (count: 46 )
Associated
traits (count: 14 )

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10444569	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10747784	0.81[ASN][1000 genomes]
rs10747786	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10747787	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10783850	0.82[AMR][1000 genomes]
rs10783851	0.82[AMR][1000 genomes]
rs10783854	0.85[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs10783855	0.86[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs10783856	0.85[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs10877024	0.82[AMR][1000 genomes]
rs10877025	0.82[AMR][1000 genomes]
rs10877026	0.81[AMR][1000 genomes]
rs10877029	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10877030	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10877031	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11172367	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11172368	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11172369	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11172371	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11172375	0.82[ASN][1000 genomes]
rs11172378	0.82[ASN][1000 genomes]
rs12312955	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12319233	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12426201	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1599750	0.88[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs1599751	0.88[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs1599931	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1875125	0.81[AMR][1000 genomes]
rs1962047	0.83[ASN][1000 genomes]
rs2002275	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3751331	0.83[ASN][1000 genomes]
rs4237844	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4760172	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4760335	0.80[AMR][1000 genomes]
rs4760339	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4760340	0.80[ASN][1000 genomes]
rs4760341	0.89[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs5017863	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs59401446	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6581157	0.84[ASN][1000 genomes]
rs7134797	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7312623	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7489290	0.80[AMR][1000 genomes]
rs7969844	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9645819	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[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	nsv559046	chr12:58162085-58478598	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	261 gene(s)	inside rSNPs	diseases

mRNA abundance (count:14)

SNP	Gene	Cis/trans	Tissue	Source
rs10877032	TSFM	Cis_1M	lymphoblastoid	RTeQTL
rs10877032	XRCC6BP1	cis	Skin Sun Exposed Lower leg	GTEx
rs10877032	XRCC6BP1	cis	Adipose Subcutaneous	GTEx
rs10877032	XRCC6BP1	cis	lung	GTEx
rs10877032	FAM119B	Cis_1M	lymphoblastoid	RTeQTL
rs10877032	XRCC6BP1	cis	Thyroid	GTEx
rs10877032	XRCC6BP1	cis	Artery Tibial	GTEx
rs10877032	XRCC6BP1	cis	Muscle Skeletal	GTEx
rs10877032	METTL21B	cis	lung	GTEx
rs10877032	RP11-571M6.13	cis	Thyroid	GTEx
rs10877032	XRCC6BP1	Cis_1M	lymphoblastoid	RTeQTL
rs10877032	CYP27B1	cis	Thyroid	GTEx
rs10877032	XRCC6BP1	cis	Heart Left Ventricle	GTEx
rs10877032	XRCC6BP1	cis	Whole Blood	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:58263200-58271200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr12:58263600-58275000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr12:58268400-58275000	Weak transcription	Fetal Muscle Leg	muscle
4	chr12:58268800-58275200	Weak transcription	Duodenum Mucosa	Duodenum
5	chr12:58268800-58275600	Weak transcription	Stomach Mucosa	stomach
6	chr12:58270000-58275200	Weak transcription	NHDF-Ad	bronchial
7	chr12:58270000-58275400	Weak transcription	K562	blood
8	chr12:58270000-58276200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr12:58270200-58274200	Weak transcription	Rectal Mucosa Donor 31	rectum
10	chr12:58270200-58275000	Weak transcription	NHLF	lung
11	chr12:58270200-58276600	Weak transcription	Sigmoid Colon	Sigmoid Colon
12	chr12:58270400-58271400	Weak transcription	Aorta	Aorta
13	chr12:58270400-58274400	Weak transcription	Skeletal Muscle Male	skeletal muscle
14	chr12:58270400-58274600	Weak transcription	Osteobl	bone
15	chr12:58270400-58275000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
16	chr12:58270400-58275200	Weak transcription	Left Ventricle	heart
17	chr12:58270400-58276600	Weak transcription	Psoas Muscle	Psoas
18	chr12:58270400-58280600	Weak transcription	Colonic Mucosa	Colon
19	chr12:58270600-58275000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr12:58270600-58275000	Weak transcription	Skeletal Muscle Female	skeletal muscle
21	chr12:58270600-58275200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links