Variant report

Variant	rs2441905
Chromosome Location	chr8:105211090-105211091
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr8:105207373..105209743-chr8:105210313..105212333,2	MCF-7	breast:

Extended variants
information (count: 57 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10102063	0.86[EUR][1000 genomes]
rs1060441	0.96[CEU][hapmap];0.93[EUR][1000 genomes]
rs2441790	0.96[CEU][hapmap];0.92[EUR][1000 genomes]
rs2441794	0.96[CEU][hapmap];0.91[EUR][1000 genomes]
rs2441802	0.85[EUR][1000 genomes]
rs2441815	0.93[EUR][1000 genomes]
rs2441818	0.93[EUR][1000 genomes]
rs2441819	0.93[EUR][1000 genomes]
rs2441821	0.93[EUR][1000 genomes]
rs2441823	0.93[EUR][1000 genomes]
rs2441824	0.93[EUR][1000 genomes]
rs2441826	0.92[EUR][1000 genomes]
rs2441827	0.92[EUR][1000 genomes]
rs2441832	0.90[EUR][1000 genomes]
rs2441850	0.86[EUR][1000 genomes]
rs2441851	0.87[CEU][hapmap];0.84[CHB][hapmap];0.93[TSI][hapmap];0.85[EUR][1000 genomes]
rs2441885	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2441895	0.82[EUR][1000 genomes]
rs2441896	0.83[EUR][1000 genomes]
rs2441902	0.97[EUR][1000 genomes]
rs2441907	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2441910	0.98[EUR][1000 genomes]
rs2511553	0.98[EUR][1000 genomes]
rs2511580	0.96[CEU][hapmap];0.93[TSI][hapmap];0.93[EUR][1000 genomes]
rs2511585	0.93[EUR][1000 genomes]
rs2511587	0.93[EUR][1000 genomes]
rs2511590	0.92[EUR][1000 genomes]
rs2511594	0.92[EUR][1000 genomes]
rs2511595	0.93[EUR][1000 genomes]
rs2511597	0.93[EUR][1000 genomes]
rs2511598	0.85[EUR][1000 genomes]
rs2511602	0.92[EUR][1000 genomes]
rs2511603	0.92[EUR][1000 genomes]
rs2511605	0.85[EUR][1000 genomes]
rs2511606	0.84[EUR][1000 genomes]
rs2511609	0.87[EUR][1000 genomes]
rs2511626	0.83[EUR][1000 genomes]
rs2511640	0.98[EUR][1000 genomes]
rs2511641	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2511643	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2511646	0.98[EUR][1000 genomes]
rs2511648	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2514631	0.87[CEU][hapmap];0.90[TSI][hapmap];0.84[EUR][1000 genomes]
rs2514632	0.83[EUR][1000 genomes]
rs2514640	0.83[EUR][1000 genomes]
rs2514645	0.83[EUR][1000 genomes]
rs2514652	0.90[EUR][1000 genomes]
rs2514659	0.89[EUR][1000 genomes]
rs2514672	0.87[EUR][1000 genomes]
rs3099574	0.98[EUR][1000 genomes]
rs7014322	1.00[YRI][hapmap]
rs750432	0.93[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1847227	chr8:105025912-105251147	Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	nsv891251	chr8:105054446-105283340	Active TSS Weak transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Bivalent/Poised TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	1 gene(s)	inside rSNPs	diseases
3	nsv891252	chr8:105106882-105227985	Strong transcription Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv831416	chr8:105137789-105296965	Flanking Active TSS Active TSS Strong transcription Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Weak transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1 gene(s)	inside rSNPs	diseases
5	esv2762762	chr8:105189986-105247833	Flanking Bivalent TSS/Enh Active TSS Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2441905	NCALD	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:105188400-105211800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr8:105210400-105211600	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr8:105210400-105213600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr8:105210600-105211400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr8:105210800-105213200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr8:105210800-105214000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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