Variant report

Variant	rs12488285
Chromosome Location	chr3:156360118-156360119
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	chr3:156357866..156360454-chr3:156391073..156393426,2	MCF-7	breast:
2	chr3:156351719..156355141-chr3:156359193..156362259,3	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SSR3-7	chr3:156359231-156383752	predAs_chen_BG181400_1

Variant related genes	Relation type
ENSG00000163659	Chromatin interaction
ENSG00000243926	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs12485328	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12696042	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13073442	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13092225	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1510276	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1510279	0.97[ASN][1000 genomes]
rs1510280	0.96[ASN][1000 genomes]
rs1850721	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1976598	0.86[ASN][1000 genomes]
rs2136690	0.85[ASN][1000 genomes]
rs28493995	0.97[ASN][1000 genomes]
rs4679782	0.86[ASN][1000 genomes]
rs6441090	0.86[ASN][1000 genomes]
rs6441091	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6766154	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6772236	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6778962	0.85[ASN][1000 genomes]
rs6787101	0.81[ASN][1000 genomes]
rs6790457	0.85[ASN][1000 genomes]
rs6807248	0.86[ASN][1000 genomes]
rs6807894	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7617108	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7628802	0.86[ASN][1000 genomes]
rs7638768	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7639306	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9815389	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9834214	0.81[EUR][1000 genomes]
rs9835981	0.96[ASN][1000 genomes]
rs9852504	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs985855	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs985856	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	nsv1014755	chr3:155889430-156411894	Flanking Active TSS Strong transcription Weak transcription Enhancers Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:156348800-156360600	Weak transcription	Right Atrium	heart
2	chr3:156349400-156361000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr3:156351800-156361000	Weak transcription	Fetal Stomach	stomach
4	chr3:156355800-156360200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr3:156355800-156367800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr3:156356200-156361200	Weak transcription	Rectal Mucosa Donor 31	rectum
7	chr3:156356200-156361600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr3:156357400-156360600	Weak transcription	K562	blood
9	chr3:156358800-156361200	Enhancers	GM12878-XiMat	blood
10	chr3:156359000-156360600	Enhancers	Primary hematopoietic stem cells short term culture	blood
11	chr3:156359000-156360600	Weak transcription	Osteobl	bone
12	chr3:156359000-156361400	Enhancers	Skeletal Muscle Male	skeletal muscle
13	chr3:156359000-156362000	Enhancers	Skeletal Muscle Female	skeletal muscle
14	chr3:156359200-156360800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr3:156359600-156361000	Enhancers	Cortex derived primary cultured neurospheres	brain
16	chr3:156360000-156360400	Weak transcription	Fetal Heart	heart
17	chr3:156360000-156361200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
18	chr3:156360000-156361600	Enhancers	Primary hematopoietic stem cells	blood
19	chr3:156360000-156376600	Weak transcription	Psoas Muscle	Psoas

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