Variant report

Variant	rs107196
Chromosome Location	chr14:36524098-36524099
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-MBIP-5	chr14:36523403-36524519	NONHSAT036406

Extended variants
information (count: 28 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs12431566	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1742867	0.88[CEU][hapmap]
rs1742868	0.85[CEU][hapmap]
rs1742869	0.85[CEU][hapmap];0.83[EUR][1000 genomes]
rs1759760	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1951375	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2755193	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2780308	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2780309	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2780310	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2780313	0.81[CEU][hapmap]
rs368181	0.85[CEU][hapmap]
rs368187	0.82[EUR][1000 genomes]
rs394246	0.85[CEU][hapmap]
rs395212	0.88[CEU][hapmap]
rs398745	0.85[CEU][hapmap]
rs429041	0.85[CEU][hapmap]
rs448145	0.88[CEU][hapmap]
rs6571735	0.81[CEU][hapmap]
rs7145211	0.88[CEU][hapmap];0.80[EUR][1000 genomes]
rs7145546	0.88[CEU][hapmap];0.80[EUR][1000 genomes]
rs7147401	0.85[CEU][hapmap]
rs860200	0.88[CEU][hapmap];0.80[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1051045	chr14:36116503-36764947	Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
2	nsv542038	chr14:36116503-36764947	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
3	nsv1051147	chr14:36413342-36562863	Enhancers Weak transcription Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv1040256	chr14:36501452-37172046	Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	45 gene(s)	inside rSNPs	diseases
5	nsv542040	chr14:36501452-37172046	Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Weak transcription Strong transcription Bivalent/Poised TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	45 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs107196	RP11-116N8.4	cis	Thyroid	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:36522800-36524600	Enhancers	Liver	Liver
2	chr14:36523200-36524200	Enhancers	Brain Anterior Caudate	brain
3	chr14:36523400-36524200	Enhancers	Brain Cingulate Gyrus	brain
4	chr14:36523400-36524200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
5	chr14:36523600-36524200	Enhancers	Brain Inferior Temporal Lobe	brain
6	chr14:36523600-36524200	Enhancers	Right Atrium	heart
7	chr14:36523800-36524200	Enhancers	Brain Hippocampus Middle	brain
8	chr14:36523800-36530800	Weak transcription	Brain Substantia Nigra	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links