Variant report

Variant	rs2572203
Chromosome Location	chr15:33818341-33818342
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 90 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:87)

rs_ID	r²[population]
rs1025579	0.91[CHB][hapmap];0.82[JPT][hapmap]
rs1025581	0.91[CHB][hapmap]
rs1025582	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1030768	0.88[EUR][1000 genomes]
rs1030770	1.00[CEU][hapmap];0.82[CHB][hapmap];0.88[EUR][1000 genomes]
rs1030771	0.87[CHB][hapmap]
rs10519828	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1077409	0.87[CHB][hapmap];0.82[JPT][hapmap]
rs11072521	1.00[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11072523	1.00[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11072524	1.00[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11072545	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11630933	0.82[CHB][hapmap]
rs11634054	0.87[CHB][hapmap]
rs11639327	0.91[CHB][hapmap];0.82[JPT][hapmap]
rs12439812	1.00[CEU][hapmap];0.89[CHB][hapmap];0.88[EUR][1000 genomes]
rs12899789	0.86[CHB][hapmap]
rs12909241	0.91[CHB][hapmap]
rs12909992	1.00[CEU][hapmap];0.91[CHB][hapmap];0.86[JPT][hapmap];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1369305	0.91[CHB][hapmap];0.82[JPT][hapmap]
rs1369306	0.91[CHB][hapmap]
rs1369310	1.00[CEU][hapmap];0.91[CHB][hapmap];0.88[EUR][1000 genomes]
rs1435097	1.00[CEU][hapmap];1.00[CHB][hapmap];0.84[CHD][hapmap];0.91[JPT][hapmap];0.86[MEX][hapmap];0.92[TSI][hapmap];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1435098	1.00[CEU][hapmap];1.00[CHB][hapmap];0.84[CHD][hapmap];0.91[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1435099	0.91[CHB][hapmap];0.82[JPT][hapmap]
rs1435100	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[CHD][hapmap];0.91[JPT][hapmap];0.86[MEX][hapmap];0.92[TSI][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1435101	0.91[CHB][hapmap]
rs1435102	0.91[CHB][hapmap]
rs1435103	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1435105	0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1435106	1.00[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1435121	0.87[CHB][hapmap]
rs1435122	1.00[CEU][hapmap];0.91[CHB][hapmap];0.86[MEX][hapmap];0.92[TSI][hapmap];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1435123	0.87[CHB][hapmap]
rs1529845	0.91[CHB][hapmap];0.82[JPT][hapmap]
rs1529846	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1529848	0.91[CHB][hapmap];0.82[JPT][hapmap]
rs1529849	0.87[CHB][hapmap];0.82[JPT][hapmap]
rs1529850	0.91[CHB][hapmap];0.82[JPT][hapmap]
rs1560965	0.91[CHB][hapmap];0.82[JPT][hapmap]
rs1560966	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1579583	0.88[EUR][1000 genomes]
rs1594955	0.87[CHB][hapmap]
rs16971851	0.82[CHB][hapmap];0.82[CHD][hapmap]
rs1836548	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1865495	0.87[CHB][hapmap];0.82[JPT][hapmap]
rs1865496	0.91[CHB][hapmap];0.82[JPT][hapmap]
rs1865499	0.87[CHB][hapmap]
rs2060453	0.87[CHB][hapmap]
rs2117574	0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2339307	1.00[CEU][hapmap];0.91[CHB][hapmap];0.86[MEX][hapmap];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2339309	0.86[CHB][hapmap]
rs2339310	1.00[CEU][hapmap];0.91[CHB][hapmap];0.86[MEX][hapmap];0.92[TSI][hapmap];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2437136	0.86[EUR][1000 genomes]
rs2572199	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.90[GIH][hapmap];0.86[JPT][hapmap];0.88[MEX][hapmap];0.93[MKK][hapmap];1.00[TSI][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2572200	0.87[CHB][hapmap]
rs2572202	0.87[CHB][hapmap];0.83[JPT][hapmap];0.81[ASN][1000 genomes]
rs2596218	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3794581	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3829476	0.87[CHB][hapmap]
rs3829477	0.87[CHB][hapmap]
rs3829478	0.87[CHB][hapmap]
rs4503763	0.87[CHB][hapmap]
rs4780124	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4780125	0.91[CHB][hapmap];0.82[JPT][hapmap]
rs589134	0.86[EUR][1000 genomes]
rs622365	0.86[EUR][1000 genomes]
rs6495134	0.91[ASN][1000 genomes]
rs682639	0.86[MEX][hapmap]
rs683141	0.86[EUR][1000 genomes]
rs7164455	0.87[CHB][hapmap]
rs7165619	0.81[ASN][1000 genomes]
rs7170881	0.86[CHB][hapmap]
rs7172763	0.91[CHB][hapmap]
rs721667	0.87[CHB][hapmap]
rs8030946	1.00[CEU][hapmap];0.86[MEX][hapmap];0.92[TSI][hapmap];0.86[EUR][1000 genomes]
rs8033477	0.87[CHB][hapmap]
rs8040445	0.91[CHB][hapmap];0.82[JPT][hapmap]
rs892770	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs892771	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs892772	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs892773	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs892775	0.87[CHB][hapmap];0.81[JPT][hapmap]
rs892776	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9302271	0.90[CHB][hapmap]
rs957467	0.87[CHB][hapmap]
rs967091	1.00[CHB][hapmap];0.91[JPT][hapmap];0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1043046	chr15:33714908-34321330	Enhancers Flanking Active TSS Strong transcription Weak transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	esv34041	chr15:33720726-33871487	Weak transcription Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Bivalent/Poised TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
3	esv34037	chr15:33732616-34049083	Enhancers ZNF genes & repeats Strong transcription Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2572203	NDNL2	cis	cerebellum	SCAN

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:33794800-33836200	Weak transcription	Aorta	Aorta
2	chr15:33814000-33835600	Weak transcription	Brain Anterior Caudate	brain
3	chr15:33818200-33818400	Enhancers	Fetal Muscle Leg	muscle
4	chr15:33818200-33818600	Enhancers	ES-I3 Cell Line	embryonic stem cell

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