Variant report

Variant	rs10489840
Chromosome Location	chr1:158644967-158644968
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs10489839	0.86[MKK][hapmap]
rs12085201	0.85[AMR][1000 genomes]
rs12085542	1.00[MEX][hapmap]
rs16840971	1.00[MEX][hapmap]
rs16840976	1.00[MEX][hapmap]
rs16840986	1.00[MEX][hapmap]
rs16840991	1.00[MEX][hapmap]
rs16841009	1.00[MEX][hapmap]
rs16841017	1.00[MEX][hapmap]
rs16841038	1.00[MEX][hapmap]
rs16841045	1.00[MEX][hapmap]
rs6427442	0.85[AMR][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	esv3491788	chr1:158537183-158725907	Enhancers Strong transcription Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	esv3491789	chr1:158537242-158725858	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
3	nsv872481	chr1:158625789-158712510	Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases
4	nsv872482	chr1:158635852-158698532	Strong transcription Flanking Active TSS Bivalent Enhancer Weak transcription Active TSS Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases
5	nsv872483	chr1:158635852-158712510	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:158634400-158652800	Strong transcription	K562	blood
2	chr1:158644400-158645400	Bivalent Enhancer	Primary monocytes fromperipheralblood	blood
3	chr1:158644400-158645400	Enhancers	Primary hematopoietic stem cells	blood
4	chr1:158644400-158645400	Bivalent Enhancer	Monocytes-CD14+_RO01746	blood
5	chr1:158644400-158646800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
6	chr1:158644600-158646600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr1:158644800-158646200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin

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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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