Variant report

Variant	rs985855
Chromosome Location	chr3:156362664-156362665
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:156360827..156364304-chr3:156391072..156393975,3	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
ENSG00000243926	Chromatin interaction
ENSG00000163659	Chromatin interaction

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs11709829	0.86[YRI][hapmap]
rs12485328	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12488285	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12696042	0.87[CEU][hapmap];0.85[JPT][hapmap];0.93[YRI][hapmap];0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs13073442	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13092225	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1469536	0.86[YRI][hapmap]
rs1510276	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1510279	0.93[ASN][1000 genomes]
rs1510280	0.91[ASN][1000 genomes]
rs1850721	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1976598	0.82[ASN][1000 genomes]
rs2136690	0.91[CHB][hapmap];0.85[JPT][hapmap];0.88[ASN][1000 genomes]
rs28493995	0.93[ASN][1000 genomes]
rs4679782	0.82[ASN][1000 genomes]
rs6441090	0.82[ASN][1000 genomes]
rs6441091	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6766154	0.95[CEU][hapmap];0.92[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6772236	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6778962	0.92[JPT][hapmap];0.81[ASN][1000 genomes]
rs6790457	0.92[JPT][hapmap];0.81[ASN][1000 genomes]
rs6807248	0.82[ASN][1000 genomes]
rs6807894	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7617108	0.95[CEU][hapmap];0.92[JPT][hapmap];0.96[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7628802	0.92[JPT][hapmap];0.82[ASN][1000 genomes]
rs7638768	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7639306	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9815389	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9822953	0.87[CEU][hapmap]
rs9834214	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9835981	0.91[ASN][1000 genomes]
rs9838430	0.87[CEU][hapmap]
rs9852504	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs985856	0.93[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:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:156355800-156367800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr3:156360000-156376600	Weak transcription	Psoas Muscle	Psoas
3	chr3:156360400-156363600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr3:156361600-156366000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr3:156361800-156363200	Enhancers	Cortex derived primary cultured neurospheres	brain
6	chr3:156361800-156365600	Weak transcription	HSMMtube	muscle
7	chr3:156362000-156362800	Enhancers	Primary hematopoietic stem cells	blood
8	chr3:156362200-156362800	Enhancers	Primary T cells from cord blood	blood
9	chr3:156362200-156362800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
10	chr3:156362200-156363400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr3:156362200-156365600	Weak transcription	Osteobl	bone
12	chr3:156362200-156367600	Weak transcription	Monocytes-CD14+_RO01746	blood
13	chr3:156362400-156362800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr3:156362400-156363000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr3:156362400-156363800	Enhancers	Primary hematopoietic stem cells short term culture	blood
16	chr3:156362600-156363200	Enhancers	GM12878-XiMat	blood

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