Variant report

Variant	rs572474
Chromosome Location	chr10:89791654-89791655
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 11 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs1556741	0.82[AFR][1000 genomes];0.80[ASN][1000 genomes]
rs495149	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs507795	1.00[CEU][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs564443	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs575957	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs621891	1.00[CEU][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs664317	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs666579	0.90[EUR][1000 genomes]
rs692788	1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];1.00[TSI][hapmap];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs692942	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs806676	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs572474	BTAF1	cis	parietal	SCAN
rs572474	PTEN	cis	parietal	SCAN

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:89783200-89792200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
2	chr10:89787600-89792000	Weak transcription	Osteobl	bone
3	chr10:89787600-89792200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
4	chr10:89788000-89791800	Weak transcription	NHDF-Ad	bronchial
5	chr10:89788800-89796800	Weak transcription	Primary T helper cells fromperipheralblood	blood
6	chr10:89788800-89797200	Weak transcription	Fetal Thymus	thymus
7	chr10:89788800-89801400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr10:89789000-89793200	Weak transcription	Primary monocytes fromperipheralblood	blood
9	chr10:89789200-89793400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
10	chr10:89789200-89797600	Weak transcription	Monocytes-CD14+_RO01746	blood
11	chr10:89789400-89792400	Weak transcription	NHEK	skin
12	chr10:89790600-89793400	Weak transcription	Fetal Intestine Large	intestine
13	chr10:89791000-89793400	Weak transcription	Fetal Intestine Small	intestine
14	chr10:89791000-89795200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr10:89791000-89795400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
16	chr10:89791000-89796400	Weak transcription	Primary hematopoietic stem cells	blood
17	chr10:89791600-89792800	Enhancers	Fetal Stomach	stomach

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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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