Variant report

Variant	rs357521
Chromosome Location	chr9:98189927-98189928
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:5)
CpG islands
(count:0)
Chromatin interactive
region (count:18)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:5 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	BATF	chr9:98189698-98189964	GM12878	blood:	n/a	n/a
2	BATF	chr9:98189652-98190008	GM12878	blood:	n/a	n/a
3	POLR2A	chr9:98189884-98190207	MCF10A-Er-Src	breast:	n/a	n/a
4	RPC155	chr9:98189364-98190017	Hela-S3	cervix:	n/a	n/a
5	GTF3C2	chr9:98189289-98189934	Hela-S3	cervix:	n/a	n/a

No data

(count:18 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr9:98187644..98190286-chr9:98266151..98268622,2	K562	blood:
2	chr9:98187685..98192036-chr9:98266677..98274746,12	MCF-7	breast:
3	chr9:98189018..98191444-chr9:98246516..98248115,2	MCF-7	breast:
4	chr9:98186276..98191956-chr9:98269234..98276633,9	K562	blood:
5	chr9:98187259..98193172-chr9:98208629..98217669,12	MCF-7	breast:
6	chr9:98167871..98172268-chr9:98186784..98190412,5	MCF-7	breast:
7	chr9:98173730..98177988-chr9:98187520..98191004,5	K562	blood:
8	chr9:98173705..98177734-chr9:98187506..98190870,3	MCF-7	breast:
9	chr9:98187278..98190652-chr9:98265637..98273315,6	K562	blood:
10	chr9:98078552..98082181-chr9:98188850..98192317,4	MCF-7	breast:
11	chr9:98187335..98191305-chr9:98637767..98639481,3	MCF-7	breast:
12	chr9:98174491..98183187-chr9:98187141..98190074,10	K562	blood:
13	chr9:98188569..98190136-chr9:98266994..98268557,2	MCF-7	breast:
14	chr9:98187696..98190762-chr9:98268567..98271378,5	MCF-7	breast:
15	chr6:57182114..57182811-chr9:98189374..98189947,2	Hela-S3	cervix:
16	chr9:98188917..98190953-chr9:98637709..98639661,2	MCF-7	breast:
17	chr9:98171235..98175849-chr9:98186797..98190089,10	MCF-7	breast:
18	chr9:98170885..98173194-chr9:98189275..98191495,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000237857	TF binding region
ENSG00000182150	Chromatin interaction
ENSG00000146143	Chromatin interaction
ENSG00000271155	Chromatin interaction
ENSG00000185920	Chromatin interaction
ENSG00000175611	Chromatin interaction
ENSG00000271659	Chromatin interaction
ENSG00000158169	Chromatin interaction
ENSG00000271384	Chromatin interaction
ENSG00000213761	Chromatin interaction

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

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

rs_ID	r²[population]
rs10821464	0.85[AMR][1000 genomes]
rs10993529	0.82[AMR][1000 genomes]
rs10993534	0.90[ASW][hapmap];0.85[JPT][hapmap];0.84[MEX][hapmap];0.84[MKK][hapmap];0.82[YRI][hapmap];0.88[AMR][1000 genomes]
rs12004780	0.85[JPT][hapmap];0.81[AMR][1000 genomes]
rs2036514	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2404693	0.88[AMR][1000 genomes]
rs28471674	0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs28679639	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs35041950	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35402806	0.88[AMR][1000 genomes]
rs35431736	0.86[AMR][1000 genomes]
rs357522	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.96[MEX][hapmap];0.95[MKK][hapmap];0.87[TSI][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs357552	0.88[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];0.90[JPT][hapmap];0.96[MEX][hapmap];0.94[TSI][hapmap];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs59710018	0.81[AMR][1000 genomes]
rs62558314	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6479605	0.86[AMR][1000 genomes]
rs7388704	0.90[ASW][hapmap];0.91[CHB][hapmap];0.88[CHD][hapmap];0.90[JPT][hapmap];0.88[MEX][hapmap];0.92[MKK][hapmap];1.00[YRI][hapmap];0.89[AMR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7868504	0.88[AMR][1000 genomes]
rs905615	0.88[AMR][1000 genomes]
rs913711	0.80[JPT][hapmap];0.84[MEX][hapmap];0.87[MKK][hapmap];0.80[YRI][hapmap];0.88[AMR][1000 genomes]
rs9695482	0.83[MEX][hapmap];0.86[AMR][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	nsv831657	chr9:97959274-98204769	Enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases
2	nsv531633	chr9:98078300-98431120	Flanking Active TSS Active TSS Strong transcription Enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
3	nsv831658	chr9:98152971-98342178	Transcr. at gene 5' and 3' Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Strong transcription Enhancers Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
4	nsv1051731	chr9:98154815-98201115	Active TSS ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:98187800-98190000	Active TSS	A549	lung
2	chr9:98188200-98190000	Active TSS	ES-I3 Cell Line	embryonic stem cell
3	chr9:98188400-98190000	Active TSS	Rectal Mucosa Donor 31	rectum
4	chr9:98189400-98196600	Weak transcription	Primary T cells fromperipheralblood	blood
5	chr9:98189400-98197400	Weak transcription	Brain Hippocampus Middle	brain
6	chr9:98189600-98192600	Weak transcription	Fetal Lung	lung
7	chr9:98189600-98196400	Weak transcription	Muscle Satellite Cultured Cells	--
8	chr9:98189600-98210800	Weak transcription	Right Atrium	heart
9	chr9:98189800-98190000	Active TSS	GM12878-XiMat	blood
10	chr9:98189800-98190000	Flanking Active TSS	Hela-S3	cervix
11	chr9:98189800-98190000	Enhancers	K562	blood
12	chr9:98189800-98192000	Weak transcription	HepG2	liver
13	chr9:98189800-98193400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr9:98189800-98206600	Weak transcription	Pancreas	Pancrea

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links