Variant report

Variant	rs4775234
Chromosome Location	chr15:60330646-60330647
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 16 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs10851671	0.93[CEU][hapmap];0.89[CHB][hapmap];0.86[CHD][hapmap];0.80[GIH][hapmap];0.87[JPT][hapmap];0.83[MEX][hapmap]
rs11071497	0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs12441322	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1559774	1.00[JPT][hapmap]
rs2007037	0.87[ASN][1000 genomes]
rs335788	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs335789	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs62003056	0.80[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv904280	chr15:60042722-60524025	Bivalent/Poised TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv833028	chr15:60227565-60418112	Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv569607	chr15:60303749-60347452	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv1043235	chr15:60318001-60350625	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv1044105	chr15:60318001-60354519	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv1038620	chr15:60319463-60349494	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv542404	chr15:60319463-60349494	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	nsv1045741	chr15:60323323-60350625	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs4775234	TEX9	cis	cerebellum	SCAN
rs4775234	MYO1E	cis	cerebellum	SCAN
rs4775234	CCNB2	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:60329200-60331200	Enhancers	HUES64 Cell Line	embryonic stem cell
2	chr15:60329200-60332200	Enhancers	HUES6 Cell Line	embryonic stem cell
3	chr15:60329800-60331000	Enhancers	HUES48 Cell Line	embryonic stem cell
4	chr15:60329800-60331000	Enhancers	iPS-18 Cell Line	embryonic stem cell
5	chr15:60329800-60332200	Enhancers	ES-WA7 Cell Line	embryonic stem cell
6	chr15:60330000-60330800	Enhancers	ES-I3 Cell Line	embryonic stem cell
7	chr15:60330000-60330800	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr15:60330000-60330800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
9	chr15:60330000-60330800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr15:60330000-60331000	Enhancers	NHEK	skin
11	chr15:60330200-60331200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr15:60330200-60334400	Enhancers	iPS-20b Cell Line	embryonic stem cell
13	chr15:60330400-60331200	Weak transcription	H9 Cell Line	embryonic stem cell
14	chr15:60330600-60331800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr15:60330600-60334800	Enhancers	iPS-15b Cell Line	embryonic stem cell
16	chr15:60330600-60335600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
17	chr15:60330600-60336400	Weak transcription	H1 Cell Line	embryonic stem cell

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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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