Variant report

Variant	rs7869925
Chromosome Location	chr9:16269616-16269617
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 11 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs10962362	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1105358	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12340901	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12340963	0.82[AMR][1000 genomes]
rs12553017	0.81[AMR][1000 genomes]
rs7857514	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949463	chr9:15970668-16377360	Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv429999	chr9:16102066-16389100	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv892642	chr9:16233085-16282979	Flanking Active TSS Enhancers Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv530933	chr9:16251206-16830845	Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
5	esv3445999	chr9:16269379-16269965	Weak transcription	n/a	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7869925	FAM154A	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:16262400-16277000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr9:16263600-16270400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr9:16263600-16272800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr9:16268000-16272800	Weak transcription	Ovary	ovary
5	chr9:16268400-16272600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
6	chr9:16268400-16272600	Weak transcription	Adipose Nuclei	Adipose
7	chr9:16268400-16272600	Weak transcription	Aorta	Aorta
8	chr9:16268400-16275800	Weak transcription	Stomach Smooth Muscle	stomach
9	chr9:16268400-16276000	Weak transcription	Muscle Satellite Cultured Cells	--
10	chr9:16268400-16276200	Weak transcription	HSMMtube	muscle
11	chr9:16268400-16278000	Weak transcription	Fetal Intestine Small	intestine
12	chr9:16268600-16272200	Weak transcription	Fetal Lung	lung
13	chr9:16268600-16272600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr9:16268600-16272600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr9:16268600-16272800	Weak transcription	Fetal Brain Female	brain
16	chr9:16268600-16272800	Weak transcription	Osteobl	bone
17	chr9:16268800-16272600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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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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