Variant report

Variant	rs1901289
Chromosome Location	chr2:39122626-39122627
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:39120189..39122638-chr2:39123945..39125546,2	K562	blood:
2	chr2:38977222..38979744-chr2:39120699..39123656,3	K562	blood:

Variant related genes	Relation type
ENSG00000115875	Chromatin interaction
ENSG00000152147	Chromatin interaction

Extended variants
information (count: 49 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs1010858	0.91[AFR][1000 genomes]
rs1010859	0.81[GIH][hapmap]
rs10204999	0.85[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs10779923	0.88[CHB][hapmap];0.86[CHD][hapmap];0.95[GIH][hapmap];0.86[JPT][hapmap];0.91[MEX][hapmap];0.93[YRI][hapmap];0.84[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs11124651	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs11124654	0.86[ASN][1000 genomes]
rs11124655	0.91[ASN][1000 genomes]
rs11675110	0.88[AMR][1000 genomes]
rs12373604	0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12465365	0.88[AMR][1000 genomes]
rs12617734	0.94[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs12621073	0.90[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs12623330	0.84[CEU][hapmap];0.83[AMR][1000 genomes]
rs12712625	0.93[ASW][hapmap];0.81[CEU][hapmap];0.82[CHB][hapmap];1.00[GIH][hapmap];0.84[LWK][hapmap];0.96[MEX][hapmap];0.93[YRI][hapmap]
rs12712626	0.92[GIH][hapmap];0.91[MEX][hapmap];0.81[TSI][hapmap];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12712627	0.93[ASW][hapmap];0.81[CEU][hapmap];0.82[CHB][hapmap];1.00[GIH][hapmap];0.88[LWK][hapmap];0.96[MEX][hapmap];0.89[MKK][hapmap];0.93[YRI][hapmap];0.82[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs12712628	0.93[AFR][1000 genomes]
rs13029388	0.81[CEU][hapmap];0.82[CHB][hapmap];0.93[YRI][hapmap];0.82[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs13029406	0.80[ASW][hapmap]
rs17494315	0.84[AMR][1000 genomes]
rs1868867	0.84[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs2060743	0.88[CHB][hapmap]
rs3099941	0.84[GIH][hapmap]
rs3099942	0.84[GIH][hapmap]
rs3099945	0.81[GIH][hapmap]
rs3099955	0.89[EUR][1000 genomes]
rs3099959	0.94[CHB][hapmap];0.82[ASN][1000 genomes]
rs3112159	0.86[GIH][hapmap]
rs3112163	0.89[GIH][hapmap]
rs373300	0.93[ASW][hapmap];0.88[CHB][hapmap];0.86[JPT][hapmap];0.88[MKK][hapmap];0.93[YRI][hapmap];0.83[ASN][1000 genomes]
rs389023	0.82[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs390008	0.85[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs3923144	0.81[GIH][hapmap]
rs4265996	0.85[CEU][hapmap];0.94[CHB][hapmap];0.86[JPT][hapmap];0.93[YRI][hapmap];0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4641916	0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4670267	0.96[CEU][hapmap];0.94[CHB][hapmap];0.96[CHD][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.89[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs4670899	0.88[CHB][hapmap];0.92[GIH][hapmap];0.88[LWK][hapmap];0.86[MKK][hapmap]
rs6544180	0.94[ASN][1000 genomes]
rs6706091	0.87[ASW][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];0.93[YRI][hapmap];0.98[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs6706186	0.83[ASN][1000 genomes]
rs6710418	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs6734584	0.85[AMR][1000 genomes]
rs6738403	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6741088	0.84[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs6744514	0.88[CHB][hapmap];0.93[YRI][hapmap];0.94[AFR][1000 genomes]
rs7586929	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7589162	0.86[YRI][hapmap]
rs7598922	0.93[ASW][hapmap];0.85[CEU][hapmap];1.00[GIH][hapmap];0.91[LWK][hapmap];0.96[MEX][hapmap];0.93[MKK][hapmap];0.93[YRI][hapmap];0.84[AFR][1000 genomes];0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9808136	0.88[CHB][hapmap];0.92[YRI][hapmap];0.94[AFR][1000 genomes]

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs1901289	DHX57	Cis_1M	lymphoblastoid	RTeQTL
rs1901289	MORN2	cis	parietal	SCAN
rs1901289	DHX57	cis	cerebellum	SCAN
rs1901289	MFN1	trans	parietal	SCAN
rs1901289	ITGB1	trans	parietal	SCAN

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:39104200-39129000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr2:39110200-39186800	Weak transcription	Stomach Smooth Muscle	stomach
3	chr2:39120800-39132400	Weak transcription	Breast Myoepithelial Primary Cells	Breast

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