Variant report

Variant	rs4646576
Chromosome Location	chr15:58338998-58338999
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:58036135..58038062-chr15:58336586..58339373,2	K562	blood:
2	chr15:58324356..58327238-chr15:58338542..58340895,2	K562	blood:
3	chr15:58337253..58339004-chr15:58345727..58347852,2	K562	blood:
4	chr15:58337544..58340240-chr15:58358497..58360223,2	K562	blood:

Variant related genes	Relation type
ENSG00000128918	Chromatin interaction

Extended variants
information (count: 61 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs10851630	0.86[CHB][hapmap];0.90[JPT][hapmap];0.85[YRI][hapmap]
rs10851631	0.86[CHB][hapmap];0.90[JPT][hapmap]
rs10851633	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11071365	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11071366	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11630835	0.82[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs11852540	0.93[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs11855259	0.86[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.81[AFR][1000 genomes]
rs11857461	0.90[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs12148093	0.84[CHB][hapmap];1.00[JPT][hapmap];0.98[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs12148907	0.92[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.90[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs12898976	0.91[YRI][hapmap]
rs12901462	0.93[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.89[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs12903474	0.86[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.89[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs12903551	0.86[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.82[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs12907038	0.86[CHB][hapmap];0.90[JPT][hapmap]
rs12908953	0.86[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.89[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs12910113	0.86[CHB][hapmap];0.90[JPT][hapmap]
rs12910752	0.93[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs12911071	0.93[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs12914590	0.91[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs12915693	0.89[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs12915901	0.86[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs1372368	0.85[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs1441829	0.81[YRI][hapmap]
rs3204689	0.86[CHB][hapmap];0.91[JPT][hapmap];0.83[YRI][hapmap]
rs34871384	0.81[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs35246600	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35511675	0.82[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs3784260	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs3784262	0.86[CHB][hapmap]
rs3784263	0.86[CHB][hapmap]
rs4238326	1.00[CEU][hapmap];0.90[JPT][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4369598	0.91[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs4646563	0.95[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs4646568	0.96[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4646571	0.93[AFR][1000 genomes];0.87[AMR][1000 genomes];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4646572	0.81[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4646586	0.93[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs4646593	0.85[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs4646600	0.91[YRI][hapmap]
rs4646611	0.86[ASN][1000 genomes]
rs4646612	0.86[ASN][1000 genomes]
rs4646615	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs4646616	0.86[CHB][hapmap]
rs4646619	0.81[AFR][1000 genomes]
rs4646627	0.83[AFR][1000 genomes]
rs4646629	0.83[AFR][1000 genomes]
rs4646636	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs4646638	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs4646640	0.86[CHB][hapmap];0.90[JPT][hapmap];0.85[YRI][hapmap]
rs7165247	0.86[CHB][hapmap]
rs7495968	0.86[CHB][hapmap];0.90[JPT][hapmap]
rs8032107	0.84[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs8032572	0.90[YRI][hapmap]
rs9325	0.86[CHB][hapmap];0.90[JPT][hapmap];0.85[YRI][hapmap];0.81[AFR][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	nsv1038667	chr15:57933076-58481870	Flanking Active TSS Enhancers Genic enhancers Active TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
2	nsv542400	chr15:57933076-58481870	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
3	nsv833023	chr15:58161839-58340174	Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
4	nsv904261	chr15:58258424-58347260	Enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv569594	chr15:58336218-58347260	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS	Chromatin interactive region	1 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	chr15:58338200-58339200	Enhancers	Fetal Intestine Large	intestine
2	chr15:58338200-58339200	Enhancers	Fetal Intestine Small	intestine
3	chr15:58338200-58339200	Enhancers	Rectal Mucosa Donor 31	rectum
4	chr15:58338200-58339400	Genic enhancers	K562	blood
5	chr15:58338200-58339800	Enhancers	Fetal Kidney	kidney
6	chr15:58338600-58339400	Enhancers	Fetal Lung	lung
7	chr15:58338800-58339000	Bivalent Enhancer	iPS-15b Cell Line	embryonic stem cell
8	chr15:58338800-58339200	Enhancers	Primary monocytes fromperipheralblood	blood
9	chr15:58338800-58339400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
10	chr15:58338800-58340400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links