Variant report

Variant	rs1554885
Chromosome Location	chr1:190015124-190015125
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 97 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:76)

rs_ID	r²[population]
rs10733068	0.96[ASN][1000 genomes]
rs10737578	0.92[ASN][1000 genomes]
rs10737579	0.94[ASN][1000 genomes]
rs10737580	0.94[ASN][1000 genomes]
rs10737581	0.87[ASN][1000 genomes]
rs10753908	0.92[ASN][1000 genomes]
rs10753909	0.93[ASN][1000 genomes]
rs10753912	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10753913	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10753915	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10753916	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10800828	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10800829	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10800834	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10920323	0.92[ASN][1000 genomes]
rs10920383	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10920386	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10920388	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10920389	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10920390	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10920397	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12032244	0.84[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs12032930	0.84[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs12035350	0.84[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs12042495	0.84[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs12732394	0.93[ASN][1000 genomes]
rs12736727	0.80[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs12749911	0.80[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs1342910	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1342911	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1418136	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1418799	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1418800	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1529314	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1539476	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1539477	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1554884	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1592252	0.82[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs1935876	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1969583	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2037872	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2418877	0.81[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs2418878	0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs2418879	0.82[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs2418880	0.82[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs2418881	0.82[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs2900731	0.80[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs4339868	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4406636	0.83[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs4420080	0.83[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs4442368	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4528121	0.84[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs4845159	0.93[ASN][1000 genomes]
rs4845162	0.83[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs4845163	0.83[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs4845211	0.93[ASN][1000 genomes]
rs4845212	0.80[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs4845213	0.80[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs4845214	0.80[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs4845215	0.80[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs4845224	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4845225	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6427944	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6427946	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6677555	0.90[ASN][1000 genomes]
rs6682223	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6688952	0.80[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs6689051	0.80[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs6689070	0.80[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs7418463	0.82[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs7514281	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7520325	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7522115	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7522287	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7527129	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7551259	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:21 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1005794	chr1:189488465-190063923	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv497885	chr1:189562225-190086077	Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv868954	chr1:189605447-190135265	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv548532	chr1:189758772-190371671	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv917005	chr1:189855484-190259380	Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv872748	chr1:189887715-190022936	Enhancers Weak transcription Flanking Active TSS Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	nsv872749	chr1:189887715-190070919	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
8	nsv1008070	chr1:189957274-190059876	Enhancers Weak transcription Flanking Active TSS Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
9	nsv535243	chr1:189957274-190059876	Enhancers Active TSS Flanking Active TSS Weak transcription	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
10	nsv872751	chr1:189973857-190070919	Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
11	nsv832104	chr1:189990148-190186708	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
12	nsv1011414	chr1:189997632-190055740	Weak transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
13	nsv1014714	chr1:189997930-190056555	Weak transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
14	esv2750820	chr1:189998057-190052111	Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	n/a
15	esv2753123	chr1:189998057-190052111	Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	n/a
16	nsv1005260	chr1:189998057-190055740	Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
17	nsv1012448	chr1:189998057-190056555	Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
18	nsv1012402	chr1:190005333-190052024	Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	n/a
19	nsv535245	chr1:190005333-190052024	Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	n/a
20	nsv932040	chr1:190005334-190914580	Enhancers Active TSS Bivalent/Poised TSS Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
21	nsv518715	chr1:190009701-190042706	Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	n/a

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:190007200-190020600	Weak transcription	iPS-15b Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links