Variant report

Variant	rs4885677
Chromosome Location	chr13:80436201-80436202
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs11149148	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12429730	0.83[AMR][1000 genomes]
rs12430637	0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12875666	0.96[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs1335281	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2027146	0.84[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs2027147	0.91[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs2027148	0.92[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs34928706	0.97[AFR][1000 genomes];0.88[AMR][1000 genomes];0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4628842	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4885676	0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs713614	0.81[AMR][1000 genomes]
rs713615	0.83[AMR][1000 genomes]
rs7319612	0.97[AFR][1000 genomes];0.88[AMR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7333650	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7333880	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7338949	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74099556	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7982512	0.90[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7983143	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7990168	0.83[AMR][1000 genomes]
rs7990447	0.83[AMR][1000 genomes]
rs9530975	0.81[AFR][1000 genomes]
rs9530976	0.83[AMR][1000 genomes]
rs9530978	0.85[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs9530979	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9530983	0.86[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9545235	0.91[AFR][1000 genomes];0.83[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs9545236	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9545242	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9545246	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9646080	0.84[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs970738	0.96[AFR][1000 genomes];0.83[AMR][1000 genomes];0.89[ASN][1000 genomes]

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	nsv1043768	chr13:80398379-80447095	Weak transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv1048990	chr13:80419496-80456454	Enhancers Weak transcription Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a
3	nsv1044254	chr13:80419496-80457686	Enhancers Flanking Active TSS Weak transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a
4	nsv977376	chr13:80435589-80438593	Enhancers Weak transcription Active TSS Flanking Active TSS	n/a	n/a	inside rSNPs	n/a

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:80425400-80443200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr13:80434000-80437000	Enhancers	Fetal Intestine Small	intestine
3	chr13:80434200-80437000	Enhancers	Fetal Intestine Large	intestine
4	chr13:80434400-80443400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr13:80435400-80436400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr13:80435400-80443400	Weak transcription	HUES6 Cell Line	embryonic stem cell
7	chr13:80435800-80436400	Active TSS	Rectal Mucosa Donor 31	rectum
8	chr13:80435800-80436800	Active TSS	Rectal Mucosa Donor 29	rectum
9	chr13:80436000-80436600	Enhancers	Duodenum Mucosa	Duodenum
10	chr13:80436000-80436800	Enhancers	Gastric	stomach
11	chr13:80436200-80436800	Enhancers	Small Intestine	intestine
12	chr13:80436200-80443400	Weak transcription	Stomach Mucosa	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links