Variant report

Variant	rs17013296
Chromosome Location	chr2:77119346-77119347
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 84 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:72)

rs_ID	r²[population]
rs10165732	0.81[CEU][hapmap]
rs10170973	0.90[CHB][hapmap];0.82[ASN][1000 genomes]
rs10183619	1.00[CHB][hapmap]
rs10186912	1.00[CHB][hapmap]
rs10189408	0.81[CEU][hapmap]
rs10190510	1.00[CHB][hapmap]
rs10191141	0.91[CEU][hapmap];0.93[GIH][hapmap]
rs10193309	1.00[CHB][hapmap]
rs10196758	1.00[CHB][hapmap]
rs10196801	1.00[CHB][hapmap]
rs10196895	1.00[CHB][hapmap]
rs10196939	1.00[CHB][hapmap]
rs10520169	0.82[JPT][hapmap]
rs11126573	0.82[CEU][hapmap]
rs13385519	0.86[EUR][1000 genomes]
rs13385839	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs13393238	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs13416719	1.00[CEU][hapmap]
rs13423635	1.00[CEU][hapmap];1.00[TSI][hapmap]
rs13427514	1.00[CHB][hapmap]
rs1400847	0.82[CEU][hapmap]
rs1446724	1.00[CHB][hapmap];0.81[CHD][hapmap]
rs1446725	1.00[CHB][hapmap];0.81[CHD][hapmap]
rs1470504	1.00[CHB][hapmap];0.81[CHD][hapmap]
rs1470505	1.00[CHB][hapmap]
rs1470506	1.00[CHB][hapmap]
rs1470508	1.00[CHB][hapmap]
rs1584235	1.00[CHB][hapmap]
rs1584237	1.00[CHB][hapmap]
rs1596913	1.00[CHB][hapmap]
rs17013276	0.83[EUR][1000 genomes]
rs17013302	0.82[JPT][hapmap]
rs17013306	0.82[JPT][hapmap]
rs17013313	0.82[JPT][hapmap]
rs17013340	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs17013341	0.91[EUR][1000 genomes]
rs17013455	0.95[CEU][hapmap];0.88[GIH][hapmap];0.97[TSI][hapmap]
rs1829289	0.82[CEU][hapmap]
rs1921627	0.91[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.90[GIH][hapmap];0.90[JPT][hapmap];0.97[TSI][hapmap];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1921628	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1929448	0.89[EUR][1000 genomes]
rs1929452	1.00[CEU][hapmap]
rs2020235	0.84[EUR][1000 genomes]
rs2065375	1.00[CEU][hapmap];0.95[GIH][hapmap];0.80[MEX][hapmap];0.97[TSI][hapmap]
rs2121410	1.00[CHB][hapmap]
rs2121411	1.00[CHB][hapmap]
rs2178574	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs4277549	0.84[EUR][1000 genomes]
rs4324338	1.00[CHB][hapmap]
rs4331533	0.82[CEU][hapmap]
rs4340548	0.82[CEU][hapmap]
rs56270055	0.82[EUR][1000 genomes]
rs60439095	0.92[EUR][1000 genomes]
rs62170343	0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6736181	1.00[CEU][hapmap];1.00[TSI][hapmap]
rs6740369	0.90[EUR][1000 genomes]
rs67475248	0.81[EUR][1000 genomes]
rs6750897	0.82[CEU][hapmap];0.85[CHB][hapmap];0.88[GIH][hapmap];0.82[EUR][1000 genomes]
rs6751097	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs721390	0.91[CEU][hapmap];0.86[EUR][1000 genomes]
rs72823122	0.82[EUR][1000 genomes]
rs7558600	0.91[CEU][hapmap];0.85[CHB][hapmap];0.90[GIH][hapmap];0.83[EUR][1000 genomes]
rs7580390	0.82[CEU][hapmap];0.85[CHB][hapmap];0.87[GIH][hapmap];0.81[EUR][1000 genomes]
rs7592470	1.00[CEU][hapmap];0.95[GIH][hapmap];0.97[TSI][hapmap]
rs7592608	1.00[CEU][hapmap]
rs7601256	1.00[CHB][hapmap]
rs7603852	0.85[EUR][1000 genomes]
rs7604637	0.95[CEU][hapmap];0.90[CHB][hapmap];0.85[CHD][hapmap];0.86[JPT][hapmap];0.97[TSI][hapmap];0.89[EUR][1000 genomes]
rs7607019	0.85[CHB][hapmap];0.88[GIH][hapmap]
rs953854	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs985234	0.86[CEU][hapmap];0.81[JPT][hapmap];0.95[EUR][1000 genomes]
rs985750	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1006086	chr2:77031163-77128651	Weak transcription Enhancers ZNF genes & repeats Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
2	nsv874322	chr2:77031247-77209750	Enhancers Weak transcription Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv1007648	chr2:77034405-77128651	Enhancers Weak transcription Active TSS ZNF genes & repeats	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	esv2752990	chr2:77038541-77217310	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv874324	chr2:77048896-77201916	Weak transcription Enhancers Active TSS ZNF genes & repeats	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
6	nsv874326	chr2:77055883-77148261	Enhancers Active TSS Weak transcription	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
7	nsv582251	chr2:77055883-77154515	Enhancers Weak transcription Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
8	nsv874327	chr2:77085752-77209750	Enhancers Weak transcription Active TSS	TF binding region Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
9	nsv874328	chr2:77096124-77196122	Enhancers Weak transcription Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
10	nsv874329	chr2:77096124-77209750	Enhancers Weak transcription Active TSS	TF binding region Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
11	esv1819739	chr2:77103474-77162163	Enhancers Weak transcription Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
12	nsv874330	chr2:77103719-77209750	Weak transcription Enhancers Active TSS	TF binding region Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs17013296	C2orf3	cis	parietal	SCAN

Chromatin state (count:0 , 50 per page) page:

No data

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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