Variant report

Variant	rs5908666
Chromosome Location	chrX:139003001-139003002
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs12012817	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap]
rs17002234	1.00[ASW][hapmap];0.90[YRI][hapmap]
rs2094702	1.00[ASW][hapmap];0.89[YRI][hapmap]
rs2485726	1.00[ASW][hapmap];0.90[YRI][hapmap]
rs2485730	1.00[YRI][hapmap]
rs2485736	1.00[YRI][hapmap]
rs2491008	0.87[ASW][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap]
rs2491012	1.00[ASW][hapmap];0.90[YRI][hapmap]
rs2497267	0.90[YRI][hapmap]
rs2497279	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap]
rs4239992	0.85[YRI][hapmap]
rs4824921	1.00[YRI][hapmap]
rs7061310	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap]

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	nsv532936	chrX:138687855-139384681	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	148 gene(s)	inside rSNPs	diseases
2	nsv491760	chrX:138780768-139283477	Active TSS Weak transcription Enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	147 gene(s)	inside rSNPs	diseases
3	nsv917353	chrX:138912620-139283492	Active TSS Flanking Active TSS Weak transcription Enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	146 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chrX:138986200-139012200	Weak transcription	Fetal Intestine Small	intestine
2	chrX:138988600-139006200	Weak transcription	Primary T cells fromperipheralblood	blood
3	chrX:138992000-139006200	Weak transcription	Primary T helper cells PMA-I stimulated	--
4	chrX:138992600-139006200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chrX:138993600-139008600	Weak transcription	GM12878-XiMat	blood
6	chrX:138994000-139012600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
7	chrX:138995400-139011000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chrX:138996200-139006200	Weak transcription	HUES48 Cell Line	embryonic stem cell
9	chrX:138996200-139006200	Weak transcription	HUES6 Cell Line	embryonic stem cell
10	chrX:138996200-139012000	Weak transcription	HUES64 Cell Line	embryonic stem cell
11	chrX:138996400-139006200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
12	chrX:138998600-139013200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
13	chrX:139000000-139005400	Weak transcription	Liver	Liver
14	chrX:139000000-139012200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
15	chrX:139001600-139006200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
16	chrX:139002600-139003200	Enhancers	K562	blood
17	chrX:139003000-139013000	Weak transcription	Fetal Heart	heart
18	chrX:139003000-139013200	Weak transcription	Psoas Muscle	Psoas

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Input of quick search could be:

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

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