Variant report

Variant	rs10863764
Chromosome Location	chr1:209400118-209400119
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10779504	0.81[CEU][hapmap]
rs10863763	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11119244	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11119245	0.88[AFR][1000 genomes];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11119248	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1320543	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1354849	0.95[AFR][1000 genomes]
rs1507334	0.95[AFR][1000 genomes]
rs1933601	0.94[AFR][1000 genomes]
rs1933616	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2250701	0.82[MEX][hapmap]
rs2788160	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4844466	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6419460	0.85[AFR][1000 genomes]
rs6674807	0.94[AFR][1000 genomes]
rs6690080	0.87[AFR][1000 genomes]
rs6693967	0.94[AFR][1000 genomes]
rs7550487	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9943143	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.99[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	nsv832481	chr1:209371276-209540333	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv832492	chr1:209383771-209589312	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs10863764	SLC41A1	cis	cerebellum	SCAN
rs10863764	CAMK1G	cis	cerebellum	SCAN
rs10863764	ELK4	cis	parietal	SCAN
rs10863764	YOD1	cis	parietal	SCAN

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:209398000-209400800	Weak transcription	Fetal Lung	lung
2	chr1:209398600-209401400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
3	chr1:209398600-209402200	Weak transcription	NHEK	skin
4	chr1:209398600-209402600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr1:209399400-209401600	Enhancers	Fetal Brain Female	brain
6	chr1:209399800-209401600	Enhancers	Fetal Brain Male	brain
7	chr1:209400000-209401200	Enhancers	H1 Cell Line	embryonic stem cell
8	chr1:209400000-209402600	Enhancers	ES-I3 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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