Variant report

Variant	rs73869049
Chromosome Location	chr3:143570499-143570500
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	RELA	chr3:143569398-143570614	GM12891	blood:	n/a	n/a
2	CTCF	chr3:143570420-143570570	HCPEpiC	choroid plexus:	n/a	n/a
3	RELA	chr3:143569729-143570656	GM19099	blood:	n/a	n/a
4	RAD21	chr3:143570445-143570829	H1-hESC	embryonic stem cell:	n/a	n/a
5	CTCF	chr3:143570480-143570630	GM12864	blood:	n/a	n/a

Variant related genes	Relation type
SLC9A9	TF binding region

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs1394398	1.00[ASN][1000 genomes]
rs1504603	1.00[ASN][1000 genomes]
rs1504604	1.00[ASN][1000 genomes]
rs16854543	1.00[AMR][1000 genomes]
rs1995529	1.00[ASN][1000 genomes]
rs1995530	1.00[ASN][1000 genomes]
rs2011297	0.93[ASN][1000 genomes]
rs2011303	1.00[ASN][1000 genomes]
rs2361205	0.85[ASN][1000 genomes]
rs2885195	1.00[ASN][1000 genomes]
rs4494926	1.00[AMR][1000 genomes]
rs4499594	1.00[ASN][1000 genomes]
rs56220620	1.00[ASN][1000 genomes]
rs56407400	1.00[ASN][1000 genomes]
rs57604330	1.00[AMR][1000 genomes]
rs57718888	1.00[ASN][1000 genomes]
rs58887384	1.00[ASN][1000 genomes]
rs58921154	1.00[ASN][1000 genomes]
rs59306133	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs60095849	1.00[AMR][1000 genomes]
rs60249173	0.85[ASN][1000 genomes]
rs60523819	1.00[ASN][1000 genomes]
rs60550983	0.85[ASN][1000 genomes]
rs6768702	0.93[ASN][1000 genomes]
rs6780027	0.93[ASN][1000 genomes]
rs6787778	1.00[AMR][1000 genomes]
rs6794907	1.00[ASN][1000 genomes]
rs73869037	0.85[ASN][1000 genomes]
rs73869039	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs73869041	0.85[ASN][1000 genomes]
rs73869042	1.00[ASN][1000 genomes]
rs73869048	1.00[ASN][1000 genomes]
rs73869050	1.00[ASN][1000 genomes]
rs73871822	1.00[ASN][1000 genomes]
rs73871823	1.00[ASN][1000 genomes]
rs73871826	1.00[ASN][1000 genomes]
rs73871827	1.00[ASN][1000 genomes]
rs7434217	1.00[ASN][1000 genomes]
rs7613146	1.00[ASN][1000 genomes]
rs7637640	0.85[ASN][1000 genomes]
rs7653164	0.86[AFR][1000 genomes]
rs9824974	1.00[ASN][1000 genomes]
rs9836851	0.93[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	nsv949288	chr3:142793323-143585882	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
2	nsv1009935	chr3:143497700-143610852	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:143567400-143570600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr3:143567400-143571000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
3	chr3:143567800-143571000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr3:143568400-143570600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr3:143568600-143571000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr3:143568800-143570600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
7	chr3:143569000-143570800	Flanking Active TSS	NHEK	skin
8	chr3:143569200-143573000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
9	chr3:143569200-143573800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
10	chr3:143569400-143571000	Enhancers	HMEC	breast
11	chr3:143569400-143573200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
12	chr3:143569600-143570600	Weak transcription	Brain Inferior Temporal Lobe	brain
13	chr3:143569600-143572600	Weak transcription	Primary T cells from cord blood	blood
14	chr3:143569600-143572800	Weak transcription	Primary T helper cells fromperipheralblood	blood
15	chr3:143569600-143573200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
16	chr3:143569600-143574000	Weak transcription	Primary T cells fromperipheralblood	blood
17	chr3:143569600-143574000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
18	chr3:143569600-143574000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
19	chr3:143569800-143570600	Enhancers	iPS-15b Cell Line	embryonic stem cell
20	chr3:143569800-143570800	Enhancers	Breast Myoepithelial Primary Cells	Breast
21	chr3:143569800-143572400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
22	chr3:143570000-143570600	Enhancers	Fetal Thymus	thymus
23	chr3:143570000-143572800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
24	chr3:143570000-143573000	Weak transcription	Primary T helper cells PMA-I stimulated	--
25	chr3:143570400-143570600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
26	chr3:143570400-143570800	Enhancers	GM12878-XiMat	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links