Variant report

Variant	rs178367
Chromosome Location	chr1:84812102-84812103
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs1067072	0.93[ASN][1000 genomes]
rs1246546	0.90[CHB][hapmap];1.00[CHD][hapmap];0.85[JPT][hapmap];0.96[ASN][1000 genomes]
rs1246549	0.90[CHB][hapmap];0.85[JPT][hapmap];0.96[ASN][1000 genomes]
rs1246550	0.90[CHB][hapmap];0.90[CHD][hapmap];0.83[JPT][hapmap];0.89[ASN][1000 genomes]
rs160612	0.90[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs1690702	1.00[CHB][hapmap];0.85[JPT][hapmap];0.93[ASN][1000 genomes]
rs1699157	0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs170278	1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs17131613	1.00[CEU][hapmap]
rs17131617	1.00[CEU][hapmap]
rs17131618	1.00[CEU][hapmap]
rs172735	0.88[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.86[LWK][hapmap];0.94[MEX][hapmap];0.83[TSI][hapmap];0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs178368	0.92[ASN][1000 genomes]
rs186405	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs315520	1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs315521	0.92[ASN][1000 genomes]
rs315522	0.92[ASN][1000 genomes]
rs315523	0.92[ASN][1000 genomes]
rs315524	0.92[ASN][1000 genomes]
rs315525	1.00[CHB][hapmap];0.85[CHD][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs315526	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs315527	1.00[CHB][hapmap];0.92[JPT][hapmap];0.93[ASN][1000 genomes]
rs315528	0.94[ASW][hapmap];0.89[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.94[MEX][hapmap];1.00[MKK][hapmap];0.94[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs315530	1.00[CHB][hapmap];0.85[CHD][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs315531	0.94[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];0.94[MEX][hapmap];0.89[MKK][hapmap];0.83[TSI][hapmap];0.96[YRI][hapmap];0.93[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs315532	0.91[AFR][1000 genomes];0.83[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs315533	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs315535	0.99[ASN][1000 genomes]
rs315536	0.92[ASN][1000 genomes]
rs315538	0.92[ASN][1000 genomes]
rs315539	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs315540	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs315546	0.92[ASN][1000 genomes]
rs315547	0.99[ASN][1000 genomes]
rs315548	0.92[ASN][1000 genomes]
rs315549	0.92[ASN][1000 genomes]
rs315552	0.94[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];0.94[MEX][hapmap];0.90[MKK][hapmap];0.83[TSI][hapmap];0.96[YRI][hapmap];0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs315553	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];0.90[MKK][hapmap];0.88[TSI][hapmap];0.96[YRI][hapmap];0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs315554	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs315555	1.00[CHB][hapmap];0.85[CHD][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs315556	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs316660	1.00[CHB][hapmap];0.85[CHD][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs316661	1.00[CHB][hapmap];0.85[CHD][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs316662	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs316663	1.00[CHB][hapmap];0.85[CHD][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs316664	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.88[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs316665	0.93[ASN][1000 genomes]
rs511087	0.92[ASN][1000 genomes]
rs592464	0.93[ASN][1000 genomes]
rs786653	0.83[AMR][1000 genomes];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830414	chr1:84636738-84824651	Weak transcription Strong transcription ZNF genes & repeats Active TSS Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
2	nsv830426	chr1:84704924-84856229	Weak transcription Strong transcription Flanking Active TSS Active TSS Enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:84795800-84827000	Weak transcription	Rectal Mucosa Donor 29	rectum
2	chr1:84801400-84815000	Weak transcription	Brain Substantia Nigra	brain
3	chr1:84802800-84815600	Weak transcription	Rectal Mucosa Donor 31	rectum
4	chr1:84805800-84813800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr1:84810200-84813200	Weak transcription	HMEC	breast
6	chr1:84810200-84813400	Weak transcription	Fetal Intestine Small	intestine
7	chr1:84810200-84813800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr1:84810200-84819800	Weak transcription	HSMM	muscle
9	chr1:84810400-84812800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr1:84810400-84813000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr1:84810400-84813200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
12	chr1:84810600-84812600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr1:84810600-84813000	Weak transcription	Cortex derived primary cultured neurospheres	brain
14	chr1:84810600-84813200	Weak transcription	Osteobl	bone
15	chr1:84810600-84814800	Weak transcription	Gastric	stomach
16	chr1:84810600-84815400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr1:84810800-84813000	Weak transcription	NH-A	brain
18	chr1:84811200-84812400	Weak transcription	Skeletal Muscle Female	skeletal muscle
19	chr1:84811200-84812600	Weak transcription	Skeletal Muscle Male	skeletal muscle
20	chr1:84811200-84813200	Weak transcription	NHDF-Ad	bronchial
21	chr1:84811400-84812200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
22	chr1:84811400-84812600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
23	chr1:84811400-84812800	Weak transcription	NHLF	lung
24	chr1:84811400-84813200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
25	chr1:84811800-84812200	Enhancers	Fetal Lung	lung

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