Variant report

Variant	rs9589696
Chromosome Location	chr13:93922836-93922837
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr13:93879154..93880951-chr13:93922724..93924964,2	MCF-7	breast:
2	chr13:93921090..93923272-chr13:93941054..93943049,2	K562	blood:
3	chr13:93919996..93921843-chr13:93922617..93924683,3	K562	blood:
4	chr13:93921762..93924263-chr13:93926871..93928948,2	K562	blood:

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs11839514	0.82[JPT][hapmap]
rs12430104	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12853940	1.00[CEU][hapmap];0.90[MEX][hapmap];0.89[TSI][hapmap];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12873150	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs17234334	1.00[CEU][hapmap];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17234362	0.83[AMR][1000 genomes]
rs17300059	1.00[ASW][hapmap];1.00[CEU][hapmap];0.81[CHB][hapmap];1.00[CHD][hapmap];0.87[GIH][hapmap];0.95[JPT][hapmap];0.90[LWK][hapmap];0.90[MEX][hapmap];0.82[MKK][hapmap];1.00[TSI][hapmap];0.87[YRI][hapmap];0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17300101	1.00[CEU][hapmap];0.85[MEX][hapmap];0.89[TSI][hapmap];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2031845	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2057524	1.00[CEU][hapmap];0.92[CHD][hapmap];0.81[JPT][hapmap];0.90[MEX][hapmap];0.89[TSI][hapmap];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs35482480	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4773727	1.00[CEU][hapmap];0.81[JPT][hapmap];0.94[EUR][1000 genomes]
rs4773728	1.00[CEU][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4773731	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs67667167	0.88[EUR][1000 genomes]
rs68078947	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7139955	1.00[CEU][hapmap];0.89[TSI][hapmap];0.90[EUR][1000 genomes]
rs7996491	1.00[CEU][hapmap];0.90[JPT][hapmap];0.87[YRI][hapmap];0.93[AFR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs8001061	0.88[CEU][hapmap];0.92[CHD][hapmap];0.81[JPT][hapmap];0.90[MEX][hapmap];0.89[TSI][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9584099	1.00[ASW][hapmap];1.00[CEU][hapmap];0.86[CHB][hapmap];0.95[CHD][hapmap];0.94[GIH][hapmap];0.95[JPT][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9584100	1.00[CEU][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9584101	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9584102	1.00[CEU][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9589699	0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9589701	1.00[AFR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9589702	1.00[CEU][hapmap];0.94[JPT][hapmap];0.81[AFR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9589705	1.00[CEU][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9589707	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9589709	1.00[CEU][hapmap];0.87[TSI][hapmap];0.84[EUR][1000 genomes]
rs9589710	1.00[CEU][hapmap];0.83[EUR][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:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:93897200-93923000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
2	chr13:93901400-93923400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr13:93903000-93923000	Weak transcription	Fetal Intestine Small	intestine
4	chr13:93915400-93923200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr13:93920400-93928800	Weak transcription	Right Atrium	heart
6	chr13:93921200-93923000	Weak transcription	HUES64 Cell Line	embryonic stem cell
7	chr13:93921200-93923000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
8	chr13:93921200-93923000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
9	chr13:93921200-93923200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr13:93921200-93923200	Weak transcription	HUES48 Cell Line	embryonic stem cell
11	chr13:93921200-93923200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
12	chr13:93921200-93931400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
13	chr13:93921400-93923200	Weak transcription	HUES6 Cell Line	embryonic stem cell
14	chr13:93921400-93931400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
15	chr13:93921600-93923200	Weak transcription	H1 Cell Line	embryonic stem cell
16	chr13:93921800-93923200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr13:93922200-93923000	Enhancers	Liver	Liver
18	chr13:93922200-93923000	Enhancers	HepG2	liver
19	chr13:93922200-93923200	Enhancers	Muscle Satellite Cultured Cells	--
20	chr13:93922400-93923200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr13:93922400-93923200	Weak transcription	Ovary	ovary
22	chr13:93922400-93924400	Enhancers	Fetal Intestine Large	intestine
23	chr13:93922800-93923000	Enhancers	A549	lung
24	chr13:93922800-93923800	Enhancers	Colon Smooth Muscle	Colon
25	chr13:93922800-93923800	Enhancers	Fetal Stomach	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links