Variant report

Variant	rs2716682
Chromosome Location	chr2:39909067-39909068
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs10170462	1.00[CEU][hapmap];0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10177801	0.81[EUR][1000 genomes]
rs10186346	1.00[CEU][hapmap];0.84[JPT][hapmap];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10208929	0.81[EUR][1000 genomes]
rs11124689	0.81[EUR][1000 genomes]
rs12712652	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12989245	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs13384364	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs13405084	0.91[EUR][1000 genomes]
rs13409487	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1548870	0.81[EUR][1000 genomes]
rs1548871	0.81[EUR][1000 genomes]
rs17024145	0.83[CEU][hapmap]
rs1861244	1.00[CEU][hapmap];1.00[CHB][hapmap];0.83[JPT][hapmap];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2041736	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2058618	0.96[CEU][hapmap];1.00[CHB][hapmap];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2160199	0.84[CEU][hapmap]
rs2215956	0.81[EUR][1000 genomes]
rs2540200	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2540247	1.00[CEU][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2540248	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2540249	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2540250	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2540251	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2540252	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2540255	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2716683	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2716684	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2716686	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2716687	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2716688	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2716690	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2716691	0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2716692	0.80[AFR][1000 genomes];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2716693	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2716694	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2716720	0.81[EUR][1000 genomes]
rs2716732	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2716737	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2716738	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4670952	0.88[EUR][1000 genomes]
rs4670954	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6707177	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6711206	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6736442	0.81[EUR][1000 genomes]
rs6748628	0.81[EUR][1000 genomes]
rs917964	1.00[CEU][hapmap];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs949812	1.00[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs949813	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.89[EUR][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	nsv873889	chr2:39830183-39950482	Bivalent/Poised TSS Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv833870	chr2:39837022-40026024	Flanking Bivalent TSS/Enh Weak transcription Enhancers Strong transcription Active TSS Genic enhancers Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:39895800-39913200	Weak transcription	Fetal Brain Male	brain
2	chr2:39901600-39910000	Weak transcription	Right Ventricle	heart
3	chr2:39905400-39916600	Enhancers	Fetal Heart	heart
4	chr2:39907400-39909600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
5	chr2:39907400-39913000	Weak transcription	Fetal Kidney	kidney
6	chr2:39907600-39910600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr2:39907600-39913000	Weak transcription	H1 Cell Line	embryonic stem cell
8	chr2:39907600-39913200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr2:39907600-39922200	Weak transcription	HSMM	muscle
10	chr2:39908600-39910000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
11	chr2:39908600-39913200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr2:39909000-39909200	Enhancers	Left Ventricle	heart
13	chr2:39909000-39909200	Enhancers	Right Atrium	heart
14	chr2:39909000-39911000	Enhancers	Breast Myoepithelial Primary Cells	Breast

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