Variant report

Variant	rs4399037
Chromosome Location	chr9:99890895-99890896
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 7 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs1857086	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2888949	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4743059	0.82[ASN][1000 genomes]
rs6415812	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7019107	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]

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	nsv831662	chr9:99752521-99939231	Bivalent Enhancer Strong transcription Active TSS Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv972432	chr9:99874607-99958095	Enhancers Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island lncRNA	2 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:99875800-99895800	Strong transcription	HUES48 Cell Line	embryonic stem cell
2	chr9:99882000-99896600	Weak transcription	Right Atrium	heart
3	chr9:99882000-99897400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr9:99884000-99897000	Weak transcription	Dnd41	blood
5	chr9:99884600-99892600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr9:99884600-99892800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr9:99887200-99893000	Strong transcription	HUES6 Cell Line	embryonic stem cell
8	chr9:99889000-99893000	Strong transcription	H1 Cell Line	embryonic stem cell
9	chr9:99889000-99893200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
10	chr9:99889200-99894400	Strong transcription	iPS-18 Cell Line	embryonic stem cell
11	chr9:99889200-99895800	Strong transcription	HUES64 Cell Line	embryonic stem cell
12	chr9:99889400-99908200	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
13	chr9:99890000-99891600	Strong transcription	H9 Cell Line	embryonic stem cell
14	chr9:99890200-99891600	Strong transcription	ES-I3 Cell Line	embryonic stem cell
15	chr9:99890600-99891400	Strong transcription	iPS-15b Cell Line	embryonic stem cell
16	chr9:99890600-99891400	Strong transcription	iPS DF 6.9 Cell Line	embryonic stem cell

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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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