Variant report

Variant	rs6924380
Chromosome Location	chr6:142965680-142965681
allele	C/T
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:18)

rs_ID	r²[population]
rs13202642	0.94[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs1770771	0.87[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs1848750	0.81[EUR][1000 genomes]
rs2077836	0.87[EUR][1000 genomes]
rs263124	0.89[EUR][1000 genomes]
rs263126	0.89[EUR][1000 genomes]
rs263130	0.87[EUR][1000 genomes]
rs263131	0.91[EUR][1000 genomes]
rs4512243	0.87[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs6902754	0.94[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs6906818	0.93[ASN][1000 genomes]
rs6908599	0.99[ASN][1000 genomes]
rs6928084	0.98[ASN][1000 genomes]
rs7740440	0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7740684	0.93[ASN][1000 genomes]
rs7753052	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9390016	0.96[ASN][1000 genomes]
rs9496433	0.94[CHB][hapmap];1.00[JPT][hapmap];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	nsv949088	chr6:142561402-143128849	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv830827	chr6:142840734-143015005	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6924380	GRM1	cis	parietal	SCAN

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:142959400-142967200	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr6:142960000-142967200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr6:142963000-142967400	Weak transcription	HUES48 Cell Line	embryonic stem cell
4	chr6:142963800-142967200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr6:142965200-142968200	Weak transcription	Fetal Lung	lung

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