Variant report

Variant	rs860416
Chromosome Location	chr5:35906981-35906982
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10044883	0.81[ASN][1000 genomes]
rs10063445	1.00[JPT][hapmap]
rs10074095	1.00[JPT][hapmap]
rs10074127	1.00[JPT][hapmap]
rs10461959	1.00[JPT][hapmap]
rs10941267	1.00[JPT][hapmap]
rs11567762	0.89[CEU][hapmap];0.86[JPT][hapmap]
rs12055232	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12516866	0.90[JPT][hapmap]
rs1353251	1.00[JPT][hapmap]
rs1389830	1.00[JPT][hapmap]
rs1423657	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1423658	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1494555	1.00[JPT][hapmap]
rs1494556	1.00[JPT][hapmap]
rs1494567	0.90[JPT][hapmap]
rs3777090	1.00[JPT][hapmap]
rs4141646	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6862142	0.91[JPT][hapmap]
rs6870944	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6893142	1.00[JPT][hapmap]
rs7716064	1.00[JPT][hapmap]
rs852244	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs852246	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs852249	0.87[CHB][hapmap];0.86[JPT][hapmap]
rs852250	0.83[CHB][hapmap];0.86[JPT][hapmap]
rs852251	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs852252	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs852253	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs860414	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs863781	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9292616	1.00[JPT][hapmap]
rs9292617	1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv471011	chr5:35861068-36003217	Weak transcription Bivalent Enhancer Enhancers Bivalent/Poised TSS Active TSS Genic enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv830261	chr5:35863084-36018048	Weak transcription ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Enhancers Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv1025695	chr5:35902486-36036934	Bivalent Enhancer Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv4794	chr5:35906690-35934205	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:35899000-35909200	Enhancers	Fetal Thymus	thymus
2	chr5:35905000-35908200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
3	chr5:35905000-35908400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
4	chr5:35905200-35908800	Enhancers	Dnd41	blood
5	chr5:35905400-35908400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
6	chr5:35905400-35908800	Weak transcription	Primary T helper cells fromperipheralblood	blood
7	chr5:35906000-35908200	Weak transcription	Primary T helper cells PMA-I stimulated	--
8	chr5:35906000-35908400	Weak transcription	GM12878-XiMat	blood
9	chr5:35906200-35907600	Weak transcription	Thymus	Thymus

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