Variant report

Variant	rs2592564
Chromosome Location	chr2:179902038-179902039
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10084229	1.00[CHB][hapmap];0.89[JPT][hapmap]
rs10164707	0.90[JPT][hapmap]
rs10164814	0.88[JPT][hapmap]
rs10181464	0.90[JPT][hapmap]
rs10188759	0.90[JPT][hapmap]
rs10208593	1.00[CHB][hapmap];0.89[JPT][hapmap]
rs10439300	1.00[JPT][hapmap]
rs10803924	1.00[JPT][hapmap]
rs10930852	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10930855	1.00[CHB][hapmap];0.89[JPT][hapmap]
rs10930856	1.00[CHB][hapmap]
rs10930857	1.00[CHB][hapmap];0.86[JPT][hapmap]
rs12621115	0.90[JPT][hapmap]
rs12693175	1.00[CHB][hapmap];0.89[JPT][hapmap]
rs12693179	0.90[JPT][hapmap]
rs12987285	0.90[JPT][hapmap]
rs12997079	1.00[CHB][hapmap]
rs13022867	1.00[CHB][hapmap]
rs13029576	1.00[CHB][hapmap];0.88[JPT][hapmap]
rs13382185	0.90[JPT][hapmap]
rs13396334	1.00[CHB][hapmap];0.89[JPT][hapmap]
rs13404037	1.00[CHB][hapmap];0.89[JPT][hapmap]
rs1354385	0.95[ASN][1000 genomes]
rs173110	0.92[ASN][1000 genomes]
rs17363260	1.00[CHB][hapmap];0.89[JPT][hapmap]
rs17363267	1.00[CHB][hapmap]
rs2289993	1.00[CHB][hapmap];0.89[JPT][hapmap]
rs2289994	1.00[CHB][hapmap];0.89[JPT][hapmap]
rs2655158	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs340320	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs340321	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs340326	0.88[ASN][1000 genomes]
rs340328	0.95[ASN][1000 genomes]
rs340329	0.84[ASN][1000 genomes]
rs340332	1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs340334	0.80[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs340338	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs340349	0.95[ASN][1000 genomes]
rs340350	0.95[ASN][1000 genomes]
rs4893863	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6433746	0.91[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7558039	0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7598203	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7601366	0.89[JPT][hapmap]
rs924801	0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949133	chr2:179711376-180124327	Flanking Active TSS ZNF genes & repeats Active TSS Enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
2	nsv875455	chr2:179732845-179909467	Weak transcription Enhancers Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv875457	chr2:179775893-179966804	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv875458	chr2:179780624-179966804	Active TSS Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	nsv875463	chr2:179843612-179909467	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv875464	chr2:179843612-179939493	Active TSS Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
7	nsv875465	chr2:179843612-179966804	Flanking Active TSS Enhancers Active TSS Genic enhancers Weak transcription ZNF genes & repeats Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
8	nsv875466	chr2:179856777-179909467	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
9	nsv508184	chr2:179896384-179965419	Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Weak transcription Genic enhancers Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:179894800-179906800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr2:179897200-179910600	Weak transcription	Fetal Intestine Large	intestine
3	chr2:179897400-179906200	Weak transcription	Primary B cells from cord blood	blood
4	chr2:179897400-179910600	Weak transcription	HUES48 Cell Line	embryonic stem cell
5	chr2:179897400-179913000	Weak transcription	Thymus	Thymus
6	chr2:179897400-179913400	Weak transcription	Fetal Thymus	thymus
7	chr2:179897400-179913800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr2:179897600-179902600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
9	chr2:179897600-179909200	Weak transcription	Right Ventricle	heart
10	chr2:179897600-179912600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
11	chr2:179897600-179913800	Weak transcription	H9 Cell Line	embryonic stem cell
12	chr2:179899200-179908200	Weak transcription	Primary T cells from cord blood	blood
13	chr2:179901600-179902400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
14	chr2:179901600-179902400	Enhancers	GM12878-XiMat	blood
15	chr2:179901600-179903200	Enhancers	Fetal Heart	heart
16	chr2:179901800-179902800	Enhancers	Primary T helper cells fromperipheralblood	blood
17	chr2:179901800-179903200	Enhancers	Primary T helper cells PMA-I stimulated	--
18	chr2:179901800-179909200	Weak transcription	Psoas Muscle	Psoas
19	chr2:179902000-179903000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
20	chr2:179902000-179909200	Weak transcription	Left Ventricle	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links