Variant report

Variant	rs17823001
Chromosome Location	chr6:146184481-146184482
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 5 )
Associated
traits (count: 3 )

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

rs_ID	r²[population]
rs1415745	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[GIH][hapmap];1.00[MEX][hapmap];0.91[MKK][hapmap];0.96[TSI][hapmap];0.87[EUR][1000 genomes]
rs55712219	1.00[AFR][1000 genomes]
rs854144	1.00[ASW][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1034226	chr6:146071068-146306942	Weak transcription Enhancers Active TSS ZNF genes & repeats Genic enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv830835	chr6:146145148-146287473	Strong transcription Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs17823001	SHPRH	cis	parietal	SCAN
rs17823001	RAET1E	cis	cerebellum	SCAN
rs17823001	SHPRH	cis	cerebellum	SCAN

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:146172200-146202400	Weak transcription	Adipose Nuclei	Adipose
2	chr6:146177600-146204200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr6:146181800-146187600	Weak transcription	Skeletal Muscle Female	skeletal muscle
4	chr6:146182400-146186600	Weak transcription	Primary T cells from cord blood	blood
5	chr6:146182400-146196600	Weak transcription	Fetal Heart	heart
6	chr6:146182600-146184600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr6:146182600-146186600	Weak transcription	Aorta	Aorta
8	chr6:146182600-146187600	Weak transcription	Psoas Muscle	Psoas
9	chr6:146182800-146186400	Weak transcription	Brain Angular Gyrus	brain
10	chr6:146183200-146186000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
11	chr6:146183600-146188800	Enhancers	Primary monocytes fromperipheralblood	blood
12	chr6:146184200-146186800	Enhancers	Primary B cells from cord blood	blood
13	chr6:146184200-146189600	Enhancers	Primary B cells from peripheral blood	blood
14	chr6:146184400-146184600	Enhancers	Primary hematopoietic stem cells	blood
15	chr6:146184400-146185400	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
16	chr6:146184400-146186000	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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