Variant report

Variant	rs5954897
Chromosome Location	chrX:138946802-138946803
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10126150	1.00[YRI][hapmap]
rs12389012	1.00[YRI][hapmap]
rs12688688	0.81[YRI][hapmap]
rs17282011	0.86[YRI][hapmap]
rs1890241	1.00[YRI][hapmap]
rs5908152	1.00[YRI][hapmap]
rs5953748	0.81[YRI][hapmap]
rs5953790	0.86[YRI][hapmap]
rs5953791	1.00[YRI][hapmap]
rs5953812	1.00[YRI][hapmap]
rs5954540	1.00[YRI][hapmap]
rs5954556	1.00[YRI][hapmap]
rs5954768	1.00[YRI][hapmap]
rs5954997	1.00[YRI][hapmap]
rs5955049	1.00[YRI][hapmap]
rs6635927	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:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chrX:138927400-138960200	Weak transcription	Liver	Liver
2	chrX:138934000-138964600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chrX:138935200-138948200	Weak transcription	Fetal Intestine Small	intestine
4	chrX:138935600-138967600	Weak transcription	Primary neutrophils fromperipheralblood	blood
5	chrX:138937000-138964200	Weak transcription	HUES64 Cell Line	embryonic stem cell
6	chrX:138938800-138960200	Weak transcription	HUES6 Cell Line	embryonic stem cell
7	chrX:138939400-138962400	Weak transcription	HUES48 Cell Line	embryonic stem cell
8	chrX:138941600-138964200	Weak transcription	Primary T cells from cord blood	blood
9	chrX:138941800-138988200	Weak transcription	Primary T cells fromperipheralblood	blood
10	chrX:138942800-138963000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chrX:138944000-138947600	Weak transcription	H9 Cell Line	embryonic stem cell
12	chrX:138946600-138958400	Weak transcription	K562	blood
13	chrX:138946800-138947400	Enhancers	GM12878-XiMat	blood

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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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