Variant report

Variant	rs10988746
Chromosome Location	chr9:101956494-101956495
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:101952435..101959187-chr9:101982290..101985737,9	MCF-7	breast:
2	chr9:101954549..101958495-chr9:101980489..101982138,3	MCF-7	breast:
3	chr9:101954768..101956923-chr9:101982229..101985039,2	MCF-7	breast:
4	chr9:101948166..101949895-chr9:101954592..101957289,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000106803	Chromatin interaction
ENSG00000119523	Chromatin interaction

Extended variants
information (count: 21 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10114715	1.00[CEU][hapmap];0.86[JPT][hapmap];0.94[EUR][1000 genomes]
rs10121020	0.85[ASW][hapmap]
rs10819641	0.93[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.93[CHD][hapmap];0.94[GIH][hapmap];0.91[JPT][hapmap];0.93[MEX][hapmap];0.88[TSI][hapmap];0.87[EUR][1000 genomes]
rs10988740	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10988743	0.82[CEU][hapmap];0.94[CHB][hapmap];0.95[JPT][hapmap];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10988744	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10988745	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs10988749	1.00[CEU][hapmap];0.90[TSI][hapmap]
rs12336513	0.93[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.93[CHD][hapmap];0.83[GIH][hapmap];0.91[JPT][hapmap];0.86[MKK][hapmap];0.81[TSI][hapmap];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12336790	1.00[CEU][hapmap];0.95[CHB][hapmap];0.82[JPT][hapmap];0.87[YRI][hapmap];0.87[EUR][1000 genomes]
rs12340839	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs12345762	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.87[EUR][1000 genomes]
rs13440104	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16918352	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.81[YRI][hapmap];0.87[EUR][1000 genomes]
rs59091994	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6478976	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs7022989	0.80[YRI][hapmap]
rs7872043	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs912248	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs912249	1.00[CEU][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][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	nsv831666	chr9:101874985-102018690	Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10988746	NR2F2	trans	lymphoblastoid	seeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:101955800-101956600	Enhancers	Primary T cells from cord blood	blood

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