Variant report

Variant	rs17574839
Chromosome Location	chr12:45108480-45108481
allele	C/T
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:49)

rs_ID	r²[population]
rs10506251	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs10506252	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs11182568	0.85[CEU][hapmap]
rs11182575	0.87[CEU][hapmap]
rs11182593	0.87[CEU][hapmap]
rs11612950	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs11613236	1.00[ASN][1000 genomes]
rs11615599	1.00[ASN][1000 genomes]
rs1452886	0.87[CEU][hapmap]
rs17094881	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs17094886	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs17094892	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs17571971	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs17572590	1.00[ASW][hapmap];0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs17572765	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs17574492	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs17575480	1.00[ASN][1000 genomes]
rs17649873	1.00[ASN][1000 genomes]
rs17650849	1.00[ASW][hapmap];0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs17651646	0.87[CEU][hapmap]
rs17652715	0.85[CEU][hapmap];1.00[CHB][hapmap];0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17653092	0.87[CEU][hapmap];1.00[CHB][hapmap];0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17653542	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs17654244	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs17654558	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs17654689	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs2408044	0.87[CEU][hapmap];1.00[CHB][hapmap];0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4768061	1.00[ASN][1000 genomes]
rs4768068	0.87[CEU][hapmap];1.00[ASN][1000 genomes]
rs4768070	1.00[ASN][1000 genomes]
rs4768561	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs4768566	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs4768570	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs4768574	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs6582510	0.87[CEU][hapmap]
rs6582511	0.87[CEU][hapmap]
rs6582512	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs7135950	1.00[ASN][1000 genomes]
rs7296595	1.00[ASN][1000 genomes]
rs7305652	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs73282400	1.00[ASN][1000 genomes]
rs73284070	1.00[ASN][1000 genomes]
rs7955981	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7957292	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs7961698	0.87[CEU][hapmap]
rs7966845	1.00[ASN][1000 genomes]
rs7967221	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs7974472	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs7976217	1.00[ASW][hapmap];0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1049818	chr12:44486312-45133783	Enhancers ZNF genes & repeats Weak transcription Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	esv3378050	chr12:44963059-45264289	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv832394	chr12:45077573-45269305	Bivalent Enhancer Active TSS Flanking Active TSS Enhancers Weak transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
4	nsv1049080	chr12:45097564-45195295	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
5	nsv526438	chr12:45108184-45108480	Weak transcription Strong transcription Enhancers	n/a	n/a	inside rSNPs	n/a

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:45065000-45116000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
2	chr12:45080800-45136000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
3	chr12:45081400-45115600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
4	chr12:45083200-45110000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
5	chr12:45088000-45110800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
6	chr12:45089000-45114200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr12:45090600-45110200	Weak transcription	Brain Germinal Matrix	brain
8	chr12:45091200-45110800	Weak transcription	HUES48 Cell Line	embryonic stem cell
9	chr12:45101200-45114000	Weak transcription	Primary T helper cells PMA-I stimulated	--
10	chr12:45104600-45109200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
11	chr12:45105200-45117000	Weak transcription	Primary T helper cells fromperipheralblood	blood
12	chr12:45105400-45111000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
13	chr12:45105800-45111200	Weak transcription	Primary T cells fromperipheralblood	blood
14	chr12:45106600-45110600	Weak transcription	Fetal Brain Female	brain
15	chr12:45106800-45110600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr12:45108400-45108800	Weak transcription	Fetal Brain Male	brain
17	chr12:45108400-45109400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links