Variant report

Variant	rs9831680
Chromosome Location	chr3:61234832-61234833
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:61228091..61229614-chr3:61234033..61235953,2	K562	blood:

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs1093194	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11130836	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1524020	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1524021	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1996958	0.92[CHB][hapmap];1.00[JPT][hapmap]
rs2689936	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4315681	1.00[CEU][hapmap];0.84[CHB][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4453834	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4688167	0.94[CEU][hapmap];0.84[CHB][hapmap];0.95[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6791206	0.94[CEU][hapmap];0.84[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6802718	1.00[CEU][hapmap];0.92[CHB][hapmap];0.86[CHD][hapmap];0.85[GIH][hapmap];0.91[MEX][hapmap];0.92[TSI][hapmap];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7635515	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9812415	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9817853	0.94[CEU][hapmap];0.84[CHB][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9858223	0.94[CEU][hapmap];0.92[CHB][hapmap];0.95[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap]
rs9862543	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9873085	0.94[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv876866	chr3:61054494-61310328	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv876867	chr3:61054494-61474575	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv432423	chr3:61100255-61606060	Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
4	nsv1000378	chr3:61103229-61238089	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv876868	chr3:61145050-61282503	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv532626	chr3:61159646-61388418	Weak transcription Bivalent Enhancer Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	nsv1008399	chr3:61176965-61461349	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:61224000-61235200	Weak transcription	K562	blood
2	chr3:61226200-61235600	Weak transcription	Left Ventricle	heart
3	chr3:61226200-61235600	Weak transcription	Right Atrium	heart
4	chr3:61226200-61235800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
5	chr3:61227000-61235600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr3:61227000-61235600	Weak transcription	Pancreas	Pancrea
7	chr3:61228200-61235200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
8	chr3:61228800-61235400	Weak transcription	HUES6 Cell Line	embryonic stem cell
9	chr3:61228800-61235400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
10	chr3:61229000-61236000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
11	chr3:61229000-61236000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
12	chr3:61230600-61235400	Weak transcription	HUES64 Cell Line	embryonic stem cell
13	chr3:61230600-61236800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
14	chr3:61230800-61235400	Weak transcription	HUES48 Cell Line	embryonic stem cell
15	chr3:61230800-61235800	Weak transcription	Placenta Amnion	Placenta Amnion
16	chr3:61231000-61235600	Weak transcription	Fetal Heart	heart
17	chr3:61231800-61235800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
18	chr3:61233000-61235600	Weak transcription	H1 Cell Line	embryonic stem cell
19	chr3:61233200-61235800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
20	chr3:61233200-61236000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr3:61233200-61236000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
22	chr3:61233200-61236600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr3:61233200-61236600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr3:61233400-61235400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
25	chr3:61234000-61235200	Weak transcription	Cortex derived primary cultured neurospheres	brain
26	chr3:61234200-61235800	Weak transcription	Brain Inferior Temporal Lobe	brain
27	chr3:61234400-61235000	Active TSS	GM12878-XiMat	blood
28	chr3:61234600-61235400	Weak transcription	Brain Anterior Caudate	brain
29	chr3:61234600-61235600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
30	chr3:61234600-61235600	Weak transcription	Brain Substantia Nigra	brain
31	chr3:61234600-61235800	Weak transcription	Brain Cingulate Gyrus	brain
32	chr3:61234600-61236200	Weak transcription	Ovary	ovary
33	chr3:61234800-61235600	Weak transcription	Brain Angular Gyrus	brain
34	chr3:61234800-61235600	Weak transcription	Brain Hippocampus Middle	brain
35	chr3:61234800-61235800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links