Variant report

Variant	rs7281698
Chromosome Location	chr21:40209316-40209317
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:10)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:10 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr21:40203421..40205161-chr21:40207870..40210107,2	MCF-7	breast:
2	chr21:40207571..40212513-chr21:40281866..40285274,6	MCF-7	breast:
3	chr21:40176595..40179182-chr21:40208823..40211776,3	K562	blood:
4	chr21:40208198..40210644-chr21:40213695..40215361,2	K562	blood:
5	chr21:40208550..40210210-chr21:40331098..40333254,2	MCF-7	breast:
6	chr21:40176843..40178369-chr21:40207397..40210316,2	MCF-7	breast:
7	chr21:40205540..40207213-chr21:40208590..40210222,2	K562	blood:
8	chr21:40176450..40178743-chr21:40208823..40210480,3	K562	blood:
9	chr21:40209144..40212226-chr21:40213678..40216387,3	K562	blood:
10	chr21:40190146..40192879-chr21:40208219..40210251,3	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000157557	Chromatin interaction

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs1009122	0.83[EUR][1000 genomes]
rs1009123	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11700716	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13047489	0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13047716	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13048664	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1534827	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1882734	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1893203	0.81[CEU][hapmap]
rs2015748	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2836697	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2836700	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2836703	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs374575	0.90[CEU][hapmap];0.85[EUR][1000 genomes]
rs455328	0.85[CEU][hapmap];0.82[EUR][1000 genomes]
rs456574	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs464366	1.00[CEU][hapmap];0.92[CHB][hapmap];0.86[JPT][hapmap];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs464476	1.00[CEU][hapmap];0.92[CHB][hapmap];0.86[JPT][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs465657	0.92[CHB][hapmap]
rs468057	0.95[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7279430	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs7281242	0.82[CEU][hapmap]
rs7281259	0.81[CEU][hapmap]
rs877372	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs909103	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[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	nsv1062425	chr21:40172471-40380976	Enhancers Flanking Active TSS Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
2	nsv544442	chr21:40172471-40380976	Enhancers Genic enhancers Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr21:40195000-40212600	Weak transcription	Right Atrium	heart
2	chr21:40195200-40213800	Weak transcription	Fetal Kidney	kidney
3	chr21:40196400-40229000	Weak transcription	Right Ventricle	heart
4	chr21:40196600-40211000	Weak transcription	Pancreas	Pancrea
5	chr21:40197000-40211800	Weak transcription	Esophagus	oesophagus
6	chr21:40203200-40210600	Weak transcription	Spleen	Spleen
7	chr21:40203800-40225200	Weak transcription	Psoas Muscle	Psoas
8	chr21:40204200-40209600	Weak transcription	Dnd41	blood
9	chr21:40204200-40210200	Weak transcription	NHLF	lung
10	chr21:40204600-40210000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr21:40204600-40210000	Weak transcription	HMEC	breast
12	chr21:40204800-40209800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr21:40204800-40210000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr21:40204800-40210000	Weak transcription	NHEK	skin
15	chr21:40205000-40209600	Weak transcription	K562	blood
16	chr21:40205000-40210000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr21:40205200-40210000	Weak transcription	Placenta Amnion	Placenta Amnion
18	chr21:40205400-40209600	Weak transcription	Hela-S3	cervix
19	chr21:40205400-40211800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
20	chr21:40205600-40210400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
21	chr21:40207000-40210400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
22	chr21:40207600-40209800	Weak transcription	HepG2	liver

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links