Variant report

Variant	rs2139199
Chromosome Location	chr2:86046509-86046510
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 12 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs10445962	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17431285	0.82[CHB][hapmap];0.90[JPT][hapmap];0.83[ASN][1000 genomes]
rs17431365	0.81[CEU][hapmap];0.95[GIH][hapmap]
rs17509413	0.88[CEU][hapmap];0.95[GIH][hapmap]
rs56054119	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72842014	0.83[ASN][1000 genomes]
rs72842027	0.94[ASN][1000 genomes]
rs72842029	0.95[ASN][1000 genomes]
rs72842031	0.91[ASN][1000 genomes]
rs72842037	0.98[ASN][1000 genomes]
rs72842047	0.98[ASN][1000 genomes]
rs72842051	0.98[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs2139199	LOC90784	cis	lymphoblastoid	seeQTL
rs2139199	ST3GAL5	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:86029800-86054400	Weak transcription	Spleen	Spleen
2	chr2:86039800-86074800	Weak transcription	Aorta	Aorta
3	chr2:86041400-86049600	Weak transcription	Lung	lung
4	chr2:86042200-86054800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr2:86042600-86047400	Weak transcription	A549	lung
6	chr2:86045600-86047200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr2:86045600-86054400	Weak transcription	iPS DF 6.9 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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