Variant report

Variant	rs3930537
Chromosome Location	chr1:179553724-179553725
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:179552689..179555177-chr1:179784126..179786720,2	K562	blood:
2	chr1:179553040..179558877-chr1:179559940..179564416,7	MCF-7	breast:
3	chr1:179546057..179548837-chr1:179552198..179554818,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000162782	Chromatin interaction
ENSG00000229407	Chromatin interaction

Extended variants
information (count: 36 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10157699	1.00[CHB][hapmap];0.80[EUR][1000 genomes]
rs10753200	0.95[CEU][hapmap];0.81[GIH][hapmap];0.84[TSI][hapmap];0.93[EUR][1000 genomes]
rs10798689	0.84[YRI][hapmap]
rs10798708	1.00[CHB][hapmap];0.94[GIH][hapmap];0.81[TSI][hapmap]
rs10913847	0.82[CHB][hapmap]
rs12403885	0.95[CEU][hapmap];0.86[TSI][hapmap];0.89[EUR][1000 genomes]
rs12406197	0.88[EUR][1000 genomes]
rs12736279	0.85[EUR][1000 genomes]
rs12736545	0.85[EUR][1000 genomes]
rs1328597	0.87[EUR][1000 genomes]
rs1328598	0.87[EUR][1000 genomes]
rs1410589	0.95[CEU][hapmap];0.85[EUR][1000 genomes]
rs1410594	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];0.80[LWK][hapmap];0.83[MKK][hapmap];0.84[TSI][hapmap]
rs1590783	0.93[EUR][1000 genomes]
rs1887815	0.89[JPT][hapmap];0.83[YRI][hapmap];0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2026014	0.88[YRI][hapmap]
rs2209919	0.85[EUR][1000 genomes]
rs35427395	0.87[EUR][1000 genomes]
rs36057553	0.89[EUR][1000 genomes]
rs3765548	0.95[CEU][hapmap];0.84[TSI][hapmap];0.80[EUR][1000 genomes]
rs4443850	1.00[CHB][hapmap]
rs4628468	1.00[CHB][hapmap];0.97[GIH][hapmap];0.81[TSI][hapmap];0.80[EUR][1000 genomes]
rs4651043	0.91[CEU][hapmap]
rs4652417	0.94[YRI][hapmap]
rs4652418	0.93[EUR][1000 genomes]
rs4652420	1.00[CHB][hapmap];0.94[GIH][hapmap];0.85[TSI][hapmap]
rs4652424	0.95[CEU][hapmap];0.80[GIH][hapmap];0.84[TSI][hapmap];0.92[EUR][1000 genomes]
rs4652426	0.95[EUR][1000 genomes]
rs61826364	0.87[EUR][1000 genomes]
rs61826365	0.87[EUR][1000 genomes]
rs61826402	0.94[EUR][1000 genomes]
rs6673985	0.82[JPT][hapmap]
rs749960	0.87[LWK][hapmap];0.89[YRI][hapmap]
rs7517766	0.90[LWK][hapmap];0.94[YRI][hapmap]
rs7518557	0.94[YRI][hapmap]
rs7534216	1.00[CHB][hapmap];0.94[GIH][hapmap];0.81[TSI][hapmap]

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs3930537	TDRD5	cis	parietal	SCAN
rs3930537	RASAL2	cis	parietal	SCAN
rs3930537	TOR3A	cis	cerebellum	SCAN
rs3930537	NPHS2	cis	cerebellum	SCAN

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:179552400-179553800	Enhancers	HUES64 Cell Line	embryonic stem cell
2	chr1:179553200-179554600	Weak transcription	Brain Germinal Matrix	brain
3	chr1:179553400-179554000	Weak transcription	HUES48 Cell Line	embryonic stem cell
4	chr1:179553400-179554200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr1:179553600-179555000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr1:179553600-179555400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell

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