Variant report

Variant	rs4331108
Chromosome Location	chr11:120490713-120490714
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-TRIM29-5	chr11:120490643-120490976	NONHSAT024731

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10790388	0.92[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];0.97[GIH][hapmap];0.90[JPT][hapmap];0.95[MEX][hapmap];0.98[TSI][hapmap];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10892588	1.00[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11600274	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11600354	0.91[EUR][1000 genomes]
rs11600894	0.91[EUR][1000 genomes]
rs11601552	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11602011	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11603831	1.00[CEU][hapmap];0.91[CHB][hapmap];0.87[CHD][hapmap];0.89[GIH][hapmap];0.81[JPT][hapmap];0.95[MEX][hapmap];0.98[TSI][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11604139	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11605735	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12278532	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12278678	0.93[EUR][1000 genomes]
rs12281635	0.87[TSI][hapmap];0.82[EUR][1000 genomes]
rs12286173	0.99[EUR][1000 genomes]
rs34759019	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs34884722	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4245039	0.86[ASN][1000 genomes]
rs4367952	0.87[ASN][1000 genomes]
rs4611216	0.94[ASN][1000 genomes]
rs4631889	0.92[CEU][hapmap];0.96[EUR][1000 genomes]
rs4936522	0.88[ASN][1000 genomes]
rs4936523	0.88[ASN][1000 genomes]
rs4936525	0.88[ASN][1000 genomes]
rs4936526	0.86[ASN][1000 genomes]
rs6589819	0.88[ASN][1000 genomes]
rs6589820	0.86[CHB][hapmap];0.86[CHD][hapmap];0.85[JPT][hapmap];0.87[ASN][1000 genomes]
rs6589821	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7101412	0.87[ASN][1000 genomes]
rs7111020	0.92[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7127199	1.00[CHB][hapmap];0.98[CHD][hapmap];0.90[JPT][hapmap];0.95[ASN][1000 genomes]
rs7934084	0.88[ASN][1000 genomes]
rs7947677	0.88[ASN][1000 genomes]
rs7949316	0.91[CHB][hapmap];0.89[CHD][hapmap];0.80[JPT][hapmap];0.87[ASN][1000 genomes]
rs7952478	0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1054057	chr11:119781953-120519770	Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
2	nsv541178	chr11:119781953-120519770	Weak transcription Enhancers Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
3	nsv1036102	chr11:120442895-120498908	Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv468881	chr11:120446830-120551100	Enhancers Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv556476	chr11:120446830-120551100	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv975985	chr11:120487581-120492232	ZNF genes & repeats Weak transcription Enhancers	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:120484800-120507400	Weak transcription	Right Atrium	heart
2	chr11:120485400-120498200	Weak transcription	Ovary	ovary
3	chr11:120489600-120491000	Enhancers	Fetal Intestine Large	intestine
4	chr11:120489600-120500200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr11:120489800-120499600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr11:120490000-120500200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr11:120490200-120491200	Enhancers	Fetal Intestine Small	intestine

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