Variant report

Variant	rs157880
Chromosome Location	chr1:165401000-165401001
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs113471	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1467664	0.95[JPT][hapmap]
rs157871	1.00[CEU][hapmap];0.81[TSI][hapmap];0.82[EUR][1000 genomes]
rs157875	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs157876	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs157881	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs157883	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs166897	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs166899	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[LWK][hapmap];1.00[MEX][hapmap];0.91[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1831002	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs285482	0.90[MEX][hapmap]
rs3767348	0.84[ASN][1000 genomes]
rs463638	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs517456	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6669441	0.93[ASW][hapmap];0.81[CEU][hapmap]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs157880	PLS3	trans	lymphoblastoid	seeQTL
rs157880	KCNJ10	cis	parietal	SCAN

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:165394400-165402800	Weak transcription	Brain Anterior Caudate	brain
2	chr1:165394400-165405800	Weak transcription	Brain Cingulate Gyrus	brain
3	chr1:165395200-165408600	Weak transcription	Lung	lung
4	chr1:165397600-165403600	Weak transcription	Brain Hippocampus Middle	brain
5	chr1:165397800-165408600	Weak transcription	Fetal Lung	lung
6	chr1:165398200-165405400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr1:165398200-165412200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr1:165398400-165408600	Weak transcription	Fetal Muscle Trunk	muscle
9	chr1:165398600-165408400	Weak transcription	Fetal Muscle Leg	muscle
10	chr1:165399600-165402200	Weak transcription	Skeletal Muscle Female	skeletal muscle
11	chr1:165400200-165402200	Weak transcription	Pancreatic Islets	Pancreatic Islet
12	chr1:165400200-165402400	Weak transcription	Psoas Muscle	Psoas
13	chr1:165400600-165403000	Weak transcription	Brain Substantia Nigra	brain
14	chr1:165400800-165401000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
15	chr1:165400800-165401000	Enhancers	Fetal Intestine Small	intestine

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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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