Variant report

Variant	rs957438
Chromosome Location	chr11:84601377-84601378
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-TMEM126B-4	chr11:84600536-84604026	NONHSAT023429

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10082623	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10501575	1.00[CHD][hapmap]
rs10501576	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs10898301	1.00[CHB][hapmap];1.00[CHD][hapmap]
rs10898309	0.94[ASN][1000 genomes]
rs10898310	0.89[CEU][hapmap];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10898313	0.92[CEU][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10898314	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10898315	0.96[CEU][hapmap];0.89[MEX][hapmap];0.95[TSI][hapmap];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11234189	1.00[CHD][hapmap]
rs11234194	1.00[CHB][hapmap];1.00[CHD][hapmap]
rs11234203	0.81[CEU][hapmap]
rs11234219	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs11234225	0.96[CEU][hapmap];0.89[MEX][hapmap];0.95[TSI][hapmap];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11234226	0.96[CEU][hapmap];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11234230	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17741384	1.00[CHD][hapmap]
rs17808541	1.00[CHD][hapmap]
rs17808696	0.94[ASN][1000 genomes]
rs1943712	0.80[CEU][hapmap]
rs1943714	0.85[CEU][hapmap];0.88[MEX][hapmap];0.84[TSI][hapmap]
rs1943726	0.96[CEU][hapmap];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1943727	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1943728	0.95[CEU][hapmap];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1943729	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1943732	0.92[CEU][hapmap];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4486658	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4529903	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4529904	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4944498	0.81[CEU][hapmap]
rs6592211	0.92[CEU][hapmap];0.83[MEX][hapmap];0.93[TSI][hapmap];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7101454	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.98[TSI][hapmap];0.84[YRI][hapmap];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7129466	1.00[CHB][hapmap]

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	nsv948410	chr11:83918339-84812001	Bivalent/Poised TSS Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv1045974	chr11:84187214-84708462	Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv1048051	chr11:84419442-84784233	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Bivalent/Poised TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv541109	chr11:84419442-84784233	Flanking Active TSS Weak transcription Active TSS Enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv817205	chr11:84497319-84628963	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
6	nsv555625	chr11:84547441-84629013	Flanking Active TSS Enhancers Weak transcription Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:84593600-84605400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr11:84598600-84601600	Weak transcription	Fetal Heart	heart
3	chr11:84598800-84601600	Weak transcription	HSMMtube	muscle
4	chr11:84601000-84605400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr11:84601200-84601600	Weak transcription	Fetal Brain Male	brain
6	chr11:84601200-84602200	Enhancers	Fetal Brain Female	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links