Variant report

Variant	rs10280018
Chromosome Location	chr7:69059915-69059916
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-CALN1-1	chr7:69059791-69061419	NONHSAT121322
2	lnc-CALN1-1	chr7:69059791-69061419	NONHSAT121323

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

rSNPs within LD-proxies of this variant (count:73)

rs_ID	r²[population]
rs10230750	0.84[AMR][1000 genomes]
rs10233869	0.83[ASN][1000 genomes]
rs10234831	0.87[AMR][1000 genomes]
rs10236103	0.92[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs10238307	0.82[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs10240462	0.84[AMR][1000 genomes]
rs10241446	0.93[ASN][1000 genomes]
rs10242206	0.84[AMR][1000 genomes]
rs10244001	0.84[AMR][1000 genomes]
rs10244247	0.84[AMR][1000 genomes]
rs10245493	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10247386	0.84[AMR][1000 genomes]
rs10255563	0.84[AMR][1000 genomes]
rs10255613	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10256309	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10256311	0.98[ASN][1000 genomes]
rs10256943	0.82[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs10257587	0.83[ASN][1000 genomes]
rs10261380	0.82[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs10261510	0.89[ASN][1000 genomes]
rs10263467	0.84[AMR][1000 genomes]
rs10268221	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10268457	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10276664	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10279708	0.84[AMR][1000 genomes]
rs10281575	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10281579	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10452705	0.84[AMR][1000 genomes]
rs11764277	0.84[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs11764717	0.84[AMR][1000 genomes]
rs11773581	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11975481	0.84[AMR][1000 genomes]
rs11975506	0.84[AMR][1000 genomes]
rs12334231	0.88[ASN][1000 genomes]
rs12334234	0.93[ASN][1000 genomes]
rs17140693	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17140755	0.82[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs17140759	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs17140783	0.83[ASN][1000 genomes]
rs28493290	0.82[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs28524600	0.98[ASN][1000 genomes]
rs28577243	0.84[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs3735260	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs4305786	0.84[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs55654955	0.84[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs55693719	0.98[ASN][1000 genomes]
rs55756263	0.84[AMR][1000 genomes]
rs55847506	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs55880824	0.84[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs55901635	0.89[ASN][1000 genomes]
rs56800568	0.92[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs59342262	0.89[ASN][1000 genomes]
rs59517352	0.89[ASN][1000 genomes]
rs61424317	0.84[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs61692535	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61744589	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62454937	0.98[ASN][1000 genomes]
rs62454938	0.98[ASN][1000 genomes]
rs6460525	0.84[AMR][1000 genomes]
rs6950638	0.82[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs6951770	0.92[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs6977472	0.92[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs717266	0.82[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs73155227	0.98[ASN][1000 genomes]
rs73164795	0.83[ASN][1000 genomes]
rs73166559	0.84[AMR][1000 genomes]
rs73167506	0.82[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs73170834	0.84[AMR][1000 genomes]
rs7357113	0.98[ASN][1000 genomes]
rs7787342	0.98[ASN][1000 genomes]
rs7787695	0.89[ASN][1000 genomes]
rs7801209	0.84[AMR][1000 genomes]
rs7810982	0.92[AMR][1000 genomes];0.88[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	nsv1023885	chr7:68894896-69158290	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv538915	chr7:68894896-69158290	Weak transcription Bivalent Enhancer Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	nsv916011	chr7:68942155-69330800	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	nsv428169	chr7:69021482-69196743	Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv5783	chr7:69048608-69066760	Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:69057000-69061800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr7:69058400-69062000	Weak transcription	Fetal Intestine Small	intestine
3	chr7:69059800-69060000	Enhancers	Brain Anterior Caudate	brain

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