Variant report

Variant	rs9877253
Chromosome Location	chr3:100540279-100540280
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 16 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs12696195	0.89[TSI][hapmap];0.88[YRI][hapmap];0.83[EUR][1000 genomes]
rs13069634	0.95[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13433770	1.00[CEU][hapmap];0.86[YRI][hapmap];0.95[EUR][1000 genomes]
rs1992107	0.94[EUR][1000 genomes]
rs59590198	0.93[ASN][1000 genomes]
rs6765500	0.93[CEU][hapmap]
rs6808242	0.93[CEU][hapmap];0.90[CHB][hapmap];0.97[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.89[MEX][hapmap];0.80[MKK][hapmap];0.94[TSI][hapmap];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7615467	0.91[ASW][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.85[LWK][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];1.00[TSI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7642643	0.86[GIH][hapmap];0.83[TSI][hapmap]
rs7652397	0.86[CHB][hapmap];0.84[JPT][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9814084	1.00[CEU][hapmap];0.86[GIH][hapmap];0.83[TSI][hapmap];0.89[EUR][1000 genomes]
rs9833369	0.96[EUR][1000 genomes]
rs9845149	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9846590	0.86[GIH][hapmap];0.83[TSI][hapmap]
rs9873555	1.00[CEU][hapmap];0.86[GIH][hapmap];0.82[TSI][hapmap];0.90[EUR][1000 genomes]
rs9877951	0.86[GIH][hapmap];0.83[TSI][hapmap]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9877253	FAM55C	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:100505200-100558200	Weak transcription	Ovary	ovary
2	chr3:100505200-100582800	Weak transcription	Fetal Muscle Trunk	muscle
3	chr3:100506000-100548400	Weak transcription	Stomach Smooth Muscle	stomach
4	chr3:100514200-100547600	Weak transcription	Fetal Muscle Leg	muscle
5	chr3:100516000-100572200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr3:100517400-100594400	Weak transcription	Duodenum Smooth Muscle	Duodenum
7	chr3:100518800-100543000	Weak transcription	Fetal Stomach	stomach
8	chr3:100530000-100594400	Weak transcription	HSMM	muscle
9	chr3:100530400-100547000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr3:100530800-100555400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr3:100531600-100555400	Weak transcription	NHDF-Ad	bronchial
12	chr3:100533800-100573000	Weak transcription	Aorta	Aorta
13	chr3:100535600-100540800	Weak transcription	HSMMtube	muscle
14	chr3:100536000-100543000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr3:100536800-100543800	Strong transcription	Osteobl	bone
16	chr3:100538000-100547800	Weak transcription	Muscle Satellite Cultured Cells	--
17	chr3:100539000-100558200	Weak transcription	Rectal Smooth Muscle	rectum

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