Variant report

Variant	rs1418842
Chromosome Location	chr1:158432808-158432809
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 58 )
Associated
traits (count: 8 )

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs1006223	0.89[ASN][1000 genomes]
rs10489830	0.93[CEU][hapmap];0.80[EUR][1000 genomes]
rs12118413	0.92[CEU][hapmap];0.80[EUR][1000 genomes]
rs12119297	0.80[EUR][1000 genomes]
rs12122595	0.80[EUR][1000 genomes]
rs12125990	0.80[EUR][1000 genomes]
rs12127971	0.80[EUR][1000 genomes]
rs12134692	0.80[EUR][1000 genomes]
rs12136746	0.80[EUR][1000 genomes]
rs12136971	0.80[EUR][1000 genomes]
rs12139611	0.80[EUR][1000 genomes]
rs12142715	0.80[EUR][1000 genomes]
rs12143038	0.80[EUR][1000 genomes]
rs12144696	0.80[EUR][1000 genomes]
rs12239443	0.80[EUR][1000 genomes]
rs12725399	0.80[EUR][1000 genomes]
rs12725721	0.89[CEU][hapmap]
rs12728815	0.93[CEU][hapmap];0.81[EUR][1000 genomes]
rs12729052	0.92[CEU][hapmap];0.80[EUR][1000 genomes]
rs12747451	0.80[EUR][1000 genomes]
rs1342939	0.80[EUR][1000 genomes]
rs1342940	0.80[EUR][1000 genomes]
rs1388267	0.80[EUR][1000 genomes]
rs1578759	0.80[EUR][1000 genomes]
rs1578760	0.80[EUR][1000 genomes]
rs17627697	0.80[EUR][1000 genomes]
rs17628151	0.92[CEU][hapmap];0.80[EUR][1000 genomes]
rs17628749	0.81[EUR][1000 genomes]
rs17678931	0.80[EUR][1000 genomes]
rs17679007	0.80[EUR][1000 genomes]
rs2106084	0.93[CEU][hapmap]
rs2188107	0.80[EUR][1000 genomes]
rs2188108	0.81[EUR][1000 genomes]
rs2213946	0.92[CEU][hapmap];0.81[EUR][1000 genomes]
rs34199939	0.80[EUR][1000 genomes]
rs34443037	0.80[EUR][1000 genomes]
rs34616883	0.80[EUR][1000 genomes]
rs34959155	0.80[EUR][1000 genomes]
rs35053382	0.80[EUR][1000 genomes]
rs35321102	0.80[EUR][1000 genomes]
rs35963645	0.80[EUR][1000 genomes]
rs4628505	0.80[EUR][1000 genomes]
rs4644490	0.80[EUR][1000 genomes]
rs56937999	0.80[EUR][1000 genomes]
rs58605957	0.80[EUR][1000 genomes]
rs60351230	0.80[EUR][1000 genomes]
rs6427437	0.80[EUR][1000 genomes]
rs6660236	0.80[EUR][1000 genomes]
rs66946798	0.80[EUR][1000 genomes]
rs6699757	0.80[EUR][1000 genomes]
rs67317531	0.80[EUR][1000 genomes]
rs7525550	0.80[EUR][1000 genomes]
rs7540866	0.80[EUR][1000 genomes]
rs961562	0.89[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv872479	chr1:158118787-158484285	Active TSS Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv872480	chr1:158153526-158450238	Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
3	nsv998569	chr1:158317392-158443389	Enhancers Weak transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv947133	chr1:158431706-158440282	Strong transcription Weak transcription	TF binding region CpG island	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:8)

SNP	Gene	Cis/trans	Tissue	Source
rs1418842	TDRD10	cis	parietal	SCAN
rs1418842	CD1B	cis	multi-tissue	Pritchard
rs1418842	SPRR2A	cis	parietal	SCAN
rs1418842	CD1E	cis	multi-tissue	Pritchard
rs1418842	SLAMF9	cis	cerebellum	SCAN
rs1418842	S100A4	cis	parietal	SCAN
rs1418842	KIRREL	cis	cerebellum	SCAN
rs1418842	DARC	cis	lymphoblastoid	seeQTL

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:158431800-158435400	Weak transcription	Thymus	Thymus
2	chr1:158431800-158443200	Weak transcription	Fetal Thymus	thymus

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