Variant report

Variant	rs16842268
Chromosome Location	chr2:209898015-209898016
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-PTH2R-2	chr2:209896369-209898538	l_2022_chr2:209894596-209898538_76bGuttman_hES

Extended variants
information (count: 93 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:82)

rs_ID	r²[population]
rs10167720	0.96[EUR][1000 genomes]
rs10178837	0.87[EUR][1000 genomes]
rs10186320	0.89[EUR][1000 genomes]
rs10192840	0.89[EUR][1000 genomes]
rs10497912	0.87[EUR][1000 genomes]
rs10497913	0.89[EUR][1000 genomes]
rs10497914	0.89[EUR][1000 genomes]
rs10497915	1.00[CEU][hapmap];0.87[CHB][hapmap];0.89[EUR][1000 genomes]
rs10497916	1.00[CEU][hapmap];0.86[CHB][hapmap];0.88[EUR][1000 genomes]
rs10497917	1.00[CEU][hapmap];0.86[CHB][hapmap];0.89[EUR][1000 genomes]
rs1107012	1.00[CEU][hapmap];0.86[CHB][hapmap];0.86[YRI][hapmap];0.81[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs11884061	0.89[EUR][1000 genomes]
rs11884074	0.89[EUR][1000 genomes]
rs12464172	0.88[EUR][1000 genomes]
rs12991020	0.81[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs13007238	0.87[EUR][1000 genomes]
rs13018777	0.84[EUR][1000 genomes]
rs13019486	0.89[EUR][1000 genomes]
rs13021774	0.81[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs13022155	0.81[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs13024347	0.89[EUR][1000 genomes]
rs13025032	0.89[EUR][1000 genomes]
rs13025499	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs13026927	0.82[EUR][1000 genomes]
rs13029761	0.89[EUR][1000 genomes]
rs13411078	0.89[EUR][1000 genomes]
rs1357247	0.89[EUR][1000 genomes]
rs1357248	0.89[EUR][1000 genomes]
rs1402996	0.93[EUR][1000 genomes]
rs1402999	0.89[EUR][1000 genomes]
rs1522201	0.89[EUR][1000 genomes]
rs1522202	0.87[EUR][1000 genomes]
rs16842022	0.81[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs16842024	0.89[EUR][1000 genomes]
rs16842028	0.89[EUR][1000 genomes]
rs16842029	0.81[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs16842030	0.81[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs16842036	0.81[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs16842052	0.89[EUR][1000 genomes]
rs16842053	0.89[EUR][1000 genomes]
rs16842199	0.90[EUR][1000 genomes]
rs16842299	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16842371	0.81[YRI][hapmap]
rs1818784	0.89[EUR][1000 genomes]
rs1829708	0.87[EUR][1000 genomes]
rs1851368	0.89[EUR][1000 genomes]
rs1949689	0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1969381	0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2364697	0.89[EUR][1000 genomes]
rs2886146	0.88[EUR][1000 genomes]
rs2886148	0.89[EUR][1000 genomes]
rs34227926	0.89[EUR][1000 genomes]
rs34326398	0.93[EUR][1000 genomes]
rs34578232	0.88[EUR][1000 genomes]
rs35179183	0.89[EUR][1000 genomes]
rs35245441	0.81[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs35251783	0.89[EUR][1000 genomes]
rs3851939	0.89[EUR][1000 genomes]
rs3851940	0.89[EUR][1000 genomes]
rs3851941	0.89[EUR][1000 genomes]
rs3863854	0.89[EUR][1000 genomes]
rs3914935	0.87[EUR][1000 genomes]
rs3914937	0.89[EUR][1000 genomes]
rs4109419	0.89[EUR][1000 genomes]
rs4366838	0.89[EUR][1000 genomes]
rs5002645	0.81[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs56335750	0.88[EUR][1000 genomes]
rs58821250	0.90[AFR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs66515766	0.88[EUR][1000 genomes]
rs6717179	0.93[EUR][1000 genomes]
rs71409838	0.89[EUR][1000 genomes]
rs72989312	0.84[EUR][1000 genomes]
rs73064322	0.89[EUR][1000 genomes]
rs7559978	0.87[EUR][1000 genomes]
rs7580198	0.89[EUR][1000 genomes]
rs7588985	0.94[EUR][1000 genomes]
rs7599045	0.89[EUR][1000 genomes]
rs7606381	0.89[EUR][1000 genomes]
rs883049	0.93[EUR][1000 genomes]
rs939848	0.91[EUR][1000 genomes]
rs9646841	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9989816	0.93[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1012184	chr2:209755847-210049331	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv536131	chr2:209755847-210049331	Enhancers Weak transcription Strong transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	esv3487576	chr2:209768379-209947296	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	esv3487577	chr2:209768379-209947296	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv1009924	chr2:209805661-210042572	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	nsv875760	chr2:209817526-209929978	Enhancers Bivalent Enhancer Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
7	nsv1002578	chr2:209836205-210026339	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
8	nsv536132	chr2:209836205-210026339	Bivalent Enhancer ZNF genes & repeats Weak transcription Enhancers Genic enhancers Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
9	esv3371175	chr2:209886495-209902409	Enhancers Weak transcription	lncRNA	n/a	inside rSNPs	diseases
10	nsv516581	chr2:209894054-209899788	Inactive region	lncRNA	n/a	inside rSNPs	n/a
11	nsv979304	chr2:209897844-209901306	Enhancers	lncRNA	n/a	inside rSNPs	n/a

No data

Chromatin state (count:0 , 50 per page) page:

No data

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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