Variant report

Variant	rs29657
Chromosome Location	chr5:151409219-151409220
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 19 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs150566	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs153528	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs154683	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs159805	0.86[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs159806	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs159807	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs159810	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs159813	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs159931	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs159933	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs255486	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs255503	0.85[AFR][1000 genomes]
rs255504	0.82[AFR][1000 genomes]
rs29667	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs302389	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs39786	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs707164	0.80[AFR][1000 genomes]
rs707165	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1020223	chr5:151383539-151417923	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs29657	SLC6A7	cis	parietal	SCAN
rs29657	NMUR2	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:151407200-151409400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
2	chr5:151407200-151409400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
3	chr5:151407600-151409600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
4	chr5:151407800-151409600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
5	chr5:151408000-151411200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
6	chr5:151408800-151409800	Weak transcription	Primary T helper cells PMA-I stimulated	--
7	chr5:151408800-151409800	Weak transcription	Primary T helper cells fromperipheralblood	blood

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

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