Variant report

Variant	rs924005
Chromosome Location	chr15:38905770-38905771
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs10852027	0.82[EUR][1000 genomes]
rs11073338	0.96[CEU][hapmap];0.80[EUR][1000 genomes]
rs11073339	0.82[EUR][1000 genomes]
rs11073341	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11631064	0.82[EUR][1000 genomes]
rs11636580	0.82[EUR][1000 genomes]
rs11637664	0.80[EUR][1000 genomes]
rs12324139	0.96[CEU][hapmap];0.82[TSI][hapmap];0.82[EUR][1000 genomes]
rs12324161	0.96[CEU][hapmap];0.82[TSI][hapmap];0.82[EUR][1000 genomes]
rs12912299	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1495184	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62006173	0.91[ASN][1000 genomes]
rs9920715	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949171	chr15:38232548-39033746	Genic enhancers Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
2	nsv904085	chr15:38786114-38985513	Weak transcription Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv1046994	chr15:38806163-39239014	Enhancers Strong transcription Weak transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
4	nsv525770	chr15:38816833-39084956	Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription Strong transcription Genic enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
5	nsv1054651	chr15:38827825-39082844	Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
6	nsv542358	chr15:38827825-39082844	Bivalent/Poised TSS Enhancers Weak transcription Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
7	nsv904086	chr15:38829198-38931396	Enhancers Bivalent Enhancer Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs924005	BMF	cis	cerebellum	SCAN

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:38901200-38905800	Enhancers	Primary T cells fromperipheralblood	blood
2	chr15:38901200-38905800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
3	chr15:38901200-38905800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
4	chr15:38901200-38906000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
5	chr15:38901200-38913400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr15:38902200-38906000	Enhancers	Fetal Thymus	thymus
7	chr15:38902600-38905800	Enhancers	Thymus	Thymus
8	chr15:38904000-38906000	Enhancers	Primary T killer memory cells from peripheral blood	blood
9	chr15:38904200-38905800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
10	chr15:38904200-38905800	Enhancers	Primary T helper naive cells from peripheral blood	blood
11	chr15:38904200-38905800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
12	chr15:38904400-38906600	Enhancers	Primary T helper cells PMA-I stimulated	--

Quick Search:

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

what's new

Quick links