Variant report

Variant	rs16954581
Chromosome Location	chr17:46359502-46359503
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 10 )

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

rs_ID	r²[population]
rs1472966	0.84[TSI][hapmap]
rs16953051	0.86[JPT][hapmap]
rs16955073	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.94[MKK][hapmap];0.97[TSI][hapmap];0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16955463	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs16956892	0.85[EUR][1000 genomes]
rs16957346	1.00[JPT][hapmap]
rs17695373	0.84[TSI][hapmap]
rs17696392	0.84[TSI][hapmap]
rs57583172	0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs58953228	0.87[EUR][1000 genomes]
rs59386258	0.91[AFR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs72827808	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72827844	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs72827858	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs72827864	0.84[AFR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]

mRNA abundance (count:10)

SNP	Gene	Cis/trans	Tissue	Source
rs16954581	HOXB2	cis	cerebellum	SCAN
rs16954581	NBR2	cis	parietal	SCAN
rs16954581	CDK5RAP3	cis	parietal	SCAN
rs16954581	SNX11	cis	cerebellum	SCAN
rs16954581	PNPO	cis	parietal	SCAN
rs16954581	G6PC	cis	cerebellum	SCAN
rs16954581	CDK5RAP3	cis	cerebellum	SCAN
rs16954581	NFE2L1	cis	cerebellum	SCAN
rs16954581	NFE2L1	cis	parietal	SCAN
rs16954581	LOC100130581	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:46319600-46372000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
2	chr17:46323000-46370800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
3	chr17:46324200-46371600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
4	chr17:46326200-46361200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
5	chr17:46343400-46371200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
6	chr17:46355800-46359600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
7	chr17:46356400-46362000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
8	chr17:46356600-46370000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
9	chr17:46356600-46370800	Weak transcription	GM12878-XiMat	blood
10	chr17:46356800-46361000	Weak transcription	Primary T cells from cord blood	blood
11	chr17:46357000-46370800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
12	chr17:46357000-46371200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
13	chr17:46357400-46361400	Weak transcription	Primary T helper cells fromperipheralblood	blood
14	chr17:46357400-46371200	Weak transcription	Primary T helper cells PMA-I stimulated	--
15	chr17:46357600-46371400	Weak transcription	Primary T cells fromperipheralblood	blood
16	chr17:46357800-46361000	Weak transcription	K562	blood
17	chr17:46358200-46371000	Weak transcription	Primary T helper naive cells from peripheral blood	blood

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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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