Variant report

Variant	rs4372939
Chromosome Location	chr2:190487474-190487475
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 8 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs11675304	0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11678005	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11684519	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13415781	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.83[MEX][hapmap];1.00[TSI][hapmap];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1437887	0.90[TSI][hapmap];0.80[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs3860492	0.90[TSI][hapmap]
rs7587662	0.90[TSI][hapmap];0.80[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv533029	chr2:189812229-190554339	Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	40 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4372939	FSIP2	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:190479000-190503800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr2:190484000-190490600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
3	chr2:190484400-190489400	Weak transcription	HepG2	liver
4	chr2:190484400-190493800	Weak transcription	A549	lung
5	chr2:190484600-190494400	Weak transcription	HUVEC	blood vessel
6	chr2:190485600-190489400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr2:190485800-190489000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
8	chr2:190485800-190489000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
9	chr2:190486200-190494400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr2:190487200-190489000	Weak transcription	K562	blood
11	chr2:190487200-190490600	Weak transcription	Primary T helper cells fromperipheralblood	blood
12	chr2:190487400-190494000	Weak transcription	Stomach Mucosa	stomach

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