Variant report

Variant	rs2025948
Chromosome Location	chr13:93954967-93954968
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr13:93944923..93946979-chr13:93954712..93956821,2	K562	blood:
2	chr13:93953493..93955250-chr13:93979792..93982603,2	K562	blood:
3	chr13:93936716..93945483-chr13:93945998..93955040,13	K562	blood:

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs10507998	0.92[CEU][hapmap]
rs1323997	0.92[CEU][hapmap];0.83[CHB][hapmap];0.89[JPT][hapmap];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1328373	0.92[CEU][hapmap];0.88[CHB][hapmap];0.89[JPT][hapmap];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1328374	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs16948616	0.92[CEU][hapmap];0.94[CHB][hapmap];0.90[JPT][hapmap];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17267585	0.92[CEU][hapmap];0.80[ASN][1000 genomes]
rs2057525	0.92[CEU][hapmap];0.83[CHB][hapmap];0.84[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4142602	0.85[CEU][hapmap];0.83[CHB][hapmap];0.84[ASN][1000 genomes]
rs7339043	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9301866	0.92[CEU][hapmap];0.83[CHB][hapmap];0.90[JPT][hapmap];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9516204	0.84[CEU][hapmap]
rs9516205	0.84[CEU][hapmap]
rs9516208	0.80[ASN][1000 genomes]
rs9523994	0.82[CEU][hapmap]
rs9523996	0.85[CEU][hapmap];0.83[CHB][hapmap]
rs9524000	0.80[ASN][1000 genomes]
rs9524001	0.92[CEU][hapmap];0.94[CHB][hapmap];0.84[JPT][hapmap];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9556278	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9561300	0.92[CEU][hapmap];0.94[CHB][hapmap];0.84[JPT][hapmap];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9561305	0.92[CEU][hapmap];0.83[CHB][hapmap];0.89[JPT][hapmap];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9561306	0.92[CEU][hapmap];0.83[CHB][hapmap];0.90[JPT][hapmap];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[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	nsv869070	chr13:93347616-94286933	Enhancers Weak transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv1053035	chr13:93842576-94229732	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv541880	chr13:93842576-94229732	Active TSS Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	esv2751156	chr13:93912999-93988638	Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers	Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:93942800-93955400	Weak transcription	A549	lung
2	chr13:93943600-93962200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr13:93947000-93956400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr13:93947000-93956600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
5	chr13:93947200-93956400	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr13:93947200-93957000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
7	chr13:93952200-93955600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr13:93952400-93965000	Weak transcription	Fetal Kidney	kidney
9	chr13:93953600-93956600	Weak transcription	HUES48 Cell Line	embryonic stem cell
10	chr13:93954400-93955600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links