Variant report

Variant	rs12696042
Chromosome Location	chr3:156376036-156376037
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:156270798..156273116-chr3:156373903..156376666,2	K562	blood:
2	chr3:156271563..156273116-chr3:156374621..156376666,2	K562	blood:
3	chr3:156374211..156376391-chr3:156391774..156393333,2	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
ENSG00000114850	Chromatin interaction
ENSG00000163659	Chromatin interaction
ENSG00000243926	Chromatin interaction

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs11709829	0.86[YRI][hapmap]
rs12485328	0.83[CEU][hapmap];0.85[JPT][hapmap];0.90[YRI][hapmap];0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12488285	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13073442	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs13092225	0.81[CEU][hapmap];0.85[JPT][hapmap];0.82[YRI][hapmap];0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1469536	0.86[YRI][hapmap]
rs1510276	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1850721	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1976598	0.81[ASN][1000 genomes]
rs4679782	0.81[ASN][1000 genomes]
rs6441090	0.81[ASN][1000 genomes]
rs6441091	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6766154	0.91[CEU][hapmap];0.86[CHB][hapmap];0.92[JPT][hapmap];0.93[YRI][hapmap];0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6772236	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6778962	0.93[CHB][hapmap];0.93[JPT][hapmap];0.82[ASN][1000 genomes]
rs6790457	0.93[CHB][hapmap];0.92[JPT][hapmap];0.82[ASN][1000 genomes]
rs6807248	0.81[ASN][1000 genomes]
rs6807894	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7617108	0.91[CEU][hapmap];0.84[CHB][hapmap];0.92[JPT][hapmap];0.89[YRI][hapmap];0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7628802	0.82[CHB][hapmap];0.92[JPT][hapmap];0.81[ASN][1000 genomes]
rs7638768	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7639306	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9815389	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9822953	0.83[CEU][hapmap]
rs9834214	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9838430	0.83[CEU][hapmap]
rs9852504	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs985855	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]

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:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:156360000-156376600	Weak transcription	Psoas Muscle	Psoas
2	chr3:156374400-156376200	Weak transcription	HSMMtube	muscle
3	chr3:156374600-156376200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr3:156375000-156378600	Weak transcription	GM12878-XiMat	blood
5	chr3:156375400-156376600	Enhancers	Rectal Mucosa Donor 29	rectum
6	chr3:156375400-156377400	Enhancers	Rectal Mucosa Donor 31	rectum
7	chr3:156375400-156377600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr3:156375600-156376600	Enhancers	Sigmoid Colon	Sigmoid Colon
9	chr3:156375600-156381800	Weak transcription	K562	blood
10	chr3:156375800-156376600	Enhancers	Colonic Mucosa	Colon
11	chr3:156376000-156376600	Enhancers	Fetal Kidney	kidney

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