Variant report

Variant	rs12429525
Chromosome Location	chr13:48309416-48309417
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 78 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:72)

rs_ID	r²[population]
rs10507561	0.96[CEU][hapmap];0.81[JPT][hapmap]
rs12430596	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12586040	0.83[CEU][hapmap]
rs17337616	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1924787	0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs1924788	0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs1924789	0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs1924790	0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs1924803	0.96[CEU][hapmap];0.81[JPT][hapmap]
rs1924808	0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs2077433	0.96[CEU][hapmap];0.81[JPT][hapmap]
rs2078156	0.89[ASN][1000 genomes]
rs2147495	0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs2147496	0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs2147497	0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs2224914	0.85[EUR][1000 genomes]
rs2406597	0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs34197720	0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs34248686	0.83[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs35125163	0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs35773785	0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs4119501	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4119502	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4941603	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4941604	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4942671	0.80[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs4942672	0.81[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs4942674	0.93[ASN][1000 genomes]
rs4942691	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4942692	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4942694	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs5006925	0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs5006926	0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs5006927	0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs56403806	0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs56787476	0.83[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs57427955	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57463101	0.84[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs59890896	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs61972192	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs61975710	0.98[ASN][1000 genomes]
rs66962978	0.85[ASN][1000 genomes]
rs67796821	0.81[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs68115109	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs72623335	0.81[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs7324490	0.86[EUR][1000 genomes]
rs7324861	0.86[JPT][hapmap]
rs7326753	0.87[CEU][hapmap];0.84[CHB][hapmap];0.86[JPT][hapmap]
rs7489854	0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs7981324	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7982387	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7986517	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7988528	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7989376	0.88[EUR][1000 genomes]
rs7999699	0.86[EUR][1000 genomes]
rs9526381	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs9526382	0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs9526383	0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs9526384	0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs9526385	0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs9526386	0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs9526394	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9526395	1.00[CEU][hapmap];0.81[JPT][hapmap]
rs9526396	0.96[CEU][hapmap];0.81[JPT][hapmap]
rs9534754	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs9534755	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs9534756	0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs9534757	0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs9534759	0.83[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs9534771	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9534822	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9534830	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832600	chr13:48183118-48341417	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	esv3510679	chr13:48236624-48498185	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	esv3510680	chr13:48236624-48498185	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv561589	chr13:48251736-48420218	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	nsv1047818	chr13:48264618-48327155	Enhancers Bivalent Enhancer ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS	lncRNA	n/a	inside rSNPs	diseases
6	nsv1052701	chr13:48273757-48326134	Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer ZNF genes & repeats	lncRNA	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:48309400-48309600	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell

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