Variant report

Variant	rs1320159
Chromosome Location	chr3:43295970-43295971
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:43294226..43299346-chr3:43301138..43304009,5	K562	blood:
2	chr3:43286357..43288077-chr3:43294555..43297435,2	K562	blood:

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs10212591	0.83[AFR][1000 genomes]
rs11129997	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11129998	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11130003	0.80[YRI][hapmap]
rs1120779	0.89[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11713302	1.00[AMR][1000 genomes]
rs12632805	1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1320157	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1472807	0.89[YRI][hapmap];1.00[AMR][1000 genomes]
rs1506618	0.90[YRI][hapmap];1.00[AMR][1000 genomes]
rs1996496	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2036616	0.89[YRI][hapmap];0.83[AFR][1000 genomes]
rs2135510	1.00[AMR][1000 genomes]
rs2372353	1.00[AMR][1000 genomes]
rs2372357	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2372358	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2372359	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2888311	1.00[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4234427	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4234466	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4339089	1.00[AMR][1000 genomes]
rs4346523	0.89[YRI][hapmap];1.00[AMR][1000 genomes]
rs4405884	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4420837	1.00[AMR][1000 genomes]
rs4425230	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4470482	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4569634	0.89[YRI][hapmap];1.00[AMR][1000 genomes]
rs4618196	1.00[AMR][1000 genomes]
rs4642093	0.89[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4682673	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4682674	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4682681	0.89[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4682684	1.00[AMR][1000 genomes]
rs4682884	0.89[YRI][hapmap];1.00[AMR][1000 genomes]
rs4682889	1.00[AMR][1000 genomes]
rs4683365	1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4683368	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6441771	0.89[YRI][hapmap];0.83[AFR][1000 genomes]
rs6442145	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6765835	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6766825	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6767741	1.00[AMR][1000 genomes]
rs6775392	0.89[YRI][hapmap];1.00[AMR][1000 genomes]
rs6784075	1.00[AMR][1000 genomes]
rs6791682	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6793755	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7616072	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7636644	0.89[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7648023	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7651091	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs906156	0.89[YRI][hapmap];1.00[AMR][1000 genomes]
rs906157	0.89[YRI][hapmap];1.00[AMR][1000 genomes]
rs906158	0.90[YRI][hapmap];1.00[AMR][1000 genomes]
rs937827	1.00[AMR][1000 genomes]
rs9755005	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs984345	1.00[AMR][1000 genomes]
rs9859465	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv834672	chr3:43132722-43306272	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	esv2752008	chr3:43285369-43360879	Flanking Active TSS Enhancers Weak transcription Active TSS Genic enhancers Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv1009102	chr3:43285369-43369712	Enhancers Genic enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:43284400-43300400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr3:43285800-43298400	Weak transcription	Left Ventricle	heart
3	chr3:43289800-43296400	Weak transcription	Primary hematopoietic stem cells	blood
4	chr3:43289800-43297400	Weak transcription	Primary B cells from cord blood	blood
5	chr3:43290000-43296400	Weak transcription	Lung	lung
6	chr3:43290400-43299400	Weak transcription	Right Atrium	heart
7	chr3:43290800-43296600	Weak transcription	Spleen	Spleen
8	chr3:43290800-43300800	Weak transcription	Brain Anterior Caudate	brain
9	chr3:43293600-43296200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr3:43293800-43296200	Enhancers	Colon Smooth Muscle	Colon
11	chr3:43294000-43296400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
12	chr3:43294200-43296400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr3:43294200-43300800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
14	chr3:43294800-43296200	Enhancers	Cortex derived primary cultured neurospheres	brain
15	chr3:43294800-43296400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
16	chr3:43295000-43296400	Enhancers	Rectal Smooth Muscle	rectum
17	chr3:43295200-43296600	Enhancers	K562	blood
18	chr3:43295800-43296200	Flanking Active TSS	Stomach Smooth Muscle	stomach
19	chr3:43295800-43296600	Enhancers	Primary neutrophils fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links