Variant report

Variant	rs5959211
Chromosome Location	chrX:78218720-78218721
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 4 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs2742206	1.00[ASW][hapmap];0.87[CHB][hapmap];0.84[CHD][hapmap];0.82[GIH][hapmap];0.88[LWK][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];0.85[TSI][hapmap]
rs5912198	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap]
rs5959237	0.83[MEX][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3394349	chrX:77977388-78779139	Strong transcription Weak transcription Genic enhancers Enhancers Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	12 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs5959211	GPR23	cis	multi-tissue	Pritchard

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chrX:78213200-78219800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
2	chrX:78215000-78219000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
3	chrX:78217000-78221200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
4	chrX:78217000-78221600	Weak transcription	Primary B cells from cord blood	blood
5	chrX:78217200-78218800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
6	chrX:78217200-78219200	Weak transcription	Primary T helper cells PMA-I stimulated	--
7	chrX:78217200-78219600	Weak transcription	Fetal Thymus	thymus
8	chrX:78217200-78220400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
9	chrX:78217400-78224200	Weak transcription	Primary T cells from cord blood	blood
10	chrX:78217800-78219200	Enhancers	Dnd41	blood
11	chrX:78218000-78218800	Enhancers	Primary T regulatory cells fromperipheralblood	blood
12	chrX:78218000-78219200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
13	chrX:78218200-78221000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
14	chrX:78218200-78221400	Weak transcription	Primary B cells from peripheral blood	blood
15	chrX:78218200-78221400	Weak transcription	Primary T cells fromperipheralblood	blood
16	chrX:78218400-78218800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
17	chrX:78218400-78219400	Weak transcription	GM12878-XiMat	blood
18	chrX:78218600-78219000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
19	chrX:78218600-78219600	Strong transcription	Primary T helper cells fromperipheralblood	blood

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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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