Variant report

Variant	rs12907038
Chromosome Location	chr15:58244032-58244033
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:58227774..58230382-chr15:58242435..58244274,2	K562	blood:
2	chr15:58243156..58245124-chr15:58334319..58337041,2	K562	blood:
3	chr15:58237530..58240122-chr15:58243780..58246067,2	K562	blood:
4	chr15:58241768..58245024-chr15:58245855..58249548,5	K562	blood:
5	chr15:58241768..58244687-chr15:58246451..58248908,3	K562	blood:

Variant related genes	Relation type
ENSG00000128918	Chromatin interaction

Extended variants
information (count: 103 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:99)

rs_ID	r²[population]
rs1061278	0.84[CEU][hapmap]
rs1063666	0.84[CEU][hapmap]
rs10851630	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10851631	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11071356	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11071365	0.93[CHB][hapmap]
rs11630835	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11852540	0.85[EUR][1000 genomes]
rs11855259	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12148093	0.84[CHB][hapmap];0.84[EUR][1000 genomes]
rs12148281	0.81[CEU][hapmap]
rs12148907	1.00[CEU][hapmap];0.91[CHB][hapmap];0.82[JPT][hapmap];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12594082	0.84[CEU][hapmap]
rs12595180	0.84[CEU][hapmap]
rs12898976	0.84[CEU][hapmap]
rs12901462	0.96[CEU][hapmap];0.93[CHB][hapmap];0.81[JPT][hapmap];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12903474	1.00[CEU][hapmap];0.86[CHB][hapmap];0.81[JPT][hapmap];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12903551	1.00[CEU][hapmap];0.86[CHB][hapmap];0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12903724	0.80[CEU][hapmap]
rs12903792	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12907125	0.81[CEU][hapmap]
rs12908953	1.00[CEU][hapmap];0.86[CHB][hapmap];0.81[JPT][hapmap];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12909423	0.84[CEU][hapmap]
rs12910113	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12910752	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12911071	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12912093	0.81[CEU][hapmap]
rs12914388	0.81[CEU][hapmap]
rs12915901	1.00[CEU][hapmap];0.86[CHB][hapmap];0.82[JPT][hapmap];0.90[EUR][1000 genomes]
rs12917536	0.81[CEU][hapmap]
rs1372368	0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1372369	0.81[CEU][hapmap]
rs1441819	0.81[CEU][hapmap]
rs1441829	0.80[CEU][hapmap]
rs1530293	0.82[AMR][1000 genomes]
rs17820823	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1822205	0.80[CEU][hapmap]
rs2197092	0.84[CEU][hapmap]
rs2414527	0.84[CEU][hapmap]
rs3204689	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3204690	0.84[CEU][hapmap]
rs34871384	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs35511675	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3742959	0.84[CEU][hapmap]
rs3742960	0.85[CEU][hapmap]
rs3742961	0.83[CEU][hapmap]
rs3784257	0.84[CEU][hapmap]
rs3784259	0.84[CEU][hapmap]
rs3784260	1.00[CEU][hapmap];1.00[CHB][hapmap];0.81[JPT][hapmap];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3784262	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3784263	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4369598	0.87[EUR][1000 genomes]
rs4646560	0.81[CEU][hapmap]
rs4646563	0.82[EUR][1000 genomes]
rs4646564	0.81[CEU][hapmap]
rs4646568	0.93[CHB][hapmap];0.81[JPT][hapmap]
rs4646572	0.92[CHB][hapmap];0.82[JPT][hapmap]
rs4646576	0.86[CHB][hapmap];0.90[JPT][hapmap]
rs4646579	0.81[CEU][hapmap]
rs4646580	0.80[CEU][hapmap]
rs4646581	0.81[CEU][hapmap]
rs4646582	0.81[CEU][hapmap]
rs4646584	0.81[CEU][hapmap]
rs4646586	0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4646593	0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4646594	0.80[CEU][hapmap]
rs4646595	0.80[CEU][hapmap]
rs4646600	0.81[CEU][hapmap]
rs4646609	0.85[CEU][hapmap]
rs4646611	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4646612	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4646615	1.00[CHB][hapmap];0.82[JPT][hapmap]
rs4646616	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4646619	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4646620	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4646622	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4646625	0.84[CEU][hapmap]
rs4646626	0.84[CEU][hapmap]
rs4646627	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4646628	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4646629	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4646636	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4646638	1.00[CEU][hapmap];1.00[CHB][hapmap];0.81[JPT][hapmap];0.81[YRI][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4646640	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4646642	0.87[CEU][hapmap]
rs4775005	0.86[AMR][1000 genomes]
rs6493981	0.81[CEU][hapmap]
rs7164408	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7165247	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7170896	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7178497	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7178598	0.80[CEU][hapmap]
rs7180059	0.81[CEU][hapmap]
rs7495968	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8026952	0.92[CEU][hapmap]
rs8031133	0.93[ASN][1000 genomes]
rs8032572	0.80[CEU][hapmap]
rs8033270	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9325	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[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	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	nsv569593	chr15:58201698-58308650	Enhancers Weak transcription Bivalent Enhancer Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:58240200-58252800	Weak transcription	Fetal Lung	lung
2	chr15:58240400-58247000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
3	chr15:58241400-58244600	Enhancers	K562	blood
4	chr15:58243000-58244400	Weak transcription	Fetal Heart	heart
5	chr15:58243000-58247400	Weak transcription	Fetal Kidney	kidney
6	chr15:58243000-58248400	Weak transcription	Pancreas	Pancrea
7	chr15:58243800-58244200	Weak transcription	Ovary	ovary
8	chr15:58243800-58253800	Weak transcription	Right Atrium	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links