Variant report

Variant	rs2154267
Chromosome Location	chr10:56356273-56356274
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr10:56356096-56356296	MCF10A-Er-Src	breast:	n/a	n/a
2	SETDB1	chr10:56356123-56356795	U2OS	brain:	n/a	n/a

Variant related genes	Relation type
NEFMP1	TF binding region

Extended variants
information (count: 70 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:64)

rs_ID	r²[population]
rs10128484	1.00[ASW][hapmap];1.00[CEU][hapmap];0.85[GIH][hapmap];0.86[LWK][hapmap];0.86[MEX][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap]
rs10509015	1.00[CEU][hapmap]
rs10740585	0.81[EUR][1000 genomes]
rs10763116	1.00[CEU][hapmap]
rs10763118	0.93[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs10763119	0.93[CHB][hapmap];1.00[JPT][hapmap]
rs10763120	0.89[CHD][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs10825359	1.00[CEU][hapmap]
rs10825360	1.00[CEU][hapmap]
rs10825361	1.00[CEU][hapmap]
rs1219783	1.00[CEU][hapmap]
rs1219784	1.00[CEU][hapmap];0.90[TSI][hapmap]
rs1219785	1.00[CEU][hapmap];0.90[TSI][hapmap]
rs1892344	0.93[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs1930150	1.00[CEU][hapmap]
rs1930152	1.00[CEU][hapmap]
rs1930153	1.00[CEU][hapmap]
rs1930155	0.81[EUR][1000 genomes]
rs1930156	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs1930157	0.81[EUR][1000 genomes]
rs1930158	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs1930175	1.00[CEU][hapmap];1.00[TSI][hapmap]
rs1937407	1.00[CEU][hapmap];0.86[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs1937410	1.00[ASW][hapmap];1.00[CEU][hapmap];0.93[CHB][hapmap];0.95[CHD][hapmap];0.89[JPT][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.93[YRI][hapmap];0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1937413	1.00[CEU][hapmap];0.86[CHB][hapmap];0.88[JPT][hapmap]
rs1937414	1.00[ASW][hapmap];1.00[CEU][hapmap];0.85[LWK][hapmap];0.93[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap]
rs1937415	0.86[CHB][hapmap];0.89[JPT][hapmap]
rs1937417	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap]
rs1937419	1.00[CEU][hapmap];0.85[GIH][hapmap];0.86[MEX][hapmap];1.00[TSI][hapmap]
rs1937420	1.00[CEU][hapmap]
rs2026409	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2026410	1.00[CHB][hapmap];0.82[CHD][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs2026411	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2026412	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs2026413	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2104890	1.00[CEU][hapmap]
rs2384473	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap]
rs4007216	0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4381287	0.81[EUR][1000 genomes]
rs4503435	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4520501	0.81[EUR][1000 genomes]
rs4935523	1.00[CEU][hapmap];0.85[MEX][hapmap];1.00[TSI][hapmap]
rs6481106	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];1.00[TSI][hapmap]
rs6481107	1.00[CEU][hapmap];0.93[CHB][hapmap];0.86[CHD][hapmap];1.00[JPT][hapmap];0.93[MEX][hapmap];1.00[TSI][hapmap]
rs7076026	0.81[EUR][1000 genomes]
rs7089865	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7092655	1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs7095317	0.87[CHB][hapmap]
rs7096402	0.85[EUR][1000 genomes]
rs7099058	1.00[CEU][hapmap];0.85[GIH][hapmap];1.00[TSI][hapmap]
rs7901268	0.83[CHB][hapmap]
rs7903258	1.00[CEU][hapmap]
rs7903542	1.00[CEU][hapmap]
rs7919479	1.00[CEU][hapmap]
rs7919697	1.00[CEU][hapmap]
rs7922800	1.00[CEU][hapmap]
rs949689	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs949690	0.81[EUR][1000 genomes]
rs951434	1.00[CEU][hapmap]
rs951435	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs9633607	1.00[CEU][hapmap]
rs9633609	1.00[CEU][hapmap]
rs984915	1.00[CHB][hapmap];0.88[JPT][hapmap];0.89[ASN][1000 genomes]
rs9971344	1.00[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1050405	chr10:56224676-56800009	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
2	nsv540635	chr10:56224676-56800009	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
3	nsv933410	chr10:56319433-56713977	Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
4	nsv1043144	chr10:56332903-56680265	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
5	esv3419208	chr10:56351995-56372121	Enhancers Weak transcription	TF binding region lncRNA miRNA	2 gene(s)	inside rSNPs	diseases
6	nsv1045621	chr10:56353504-56468425	Enhancers Weak transcription Active TSS Flanking Active TSS	TF binding region Chromatin interactive region lncRNA miRNA	2 gene(s)	inside rSNPs	diseases

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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