Variant report

Variant	rs11181527
Chromosome Location	chr12:42892740-42892741
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ZCRB1-1	chr12:42892664-42892759	NONHSAT027783

Extended variants
information (count: 21 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10785342	0.96[CEU][hapmap];0.83[CHB][hapmap];0.83[GIH][hapmap];0.84[MEX][hapmap];0.97[TSI][hapmap];0.97[EUR][1000 genomes]
rs10880308	0.95[JPT][hapmap];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11181532	0.93[EUR][1000 genomes]
rs11181533	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11181537	0.88[ASN][1000 genomes]
rs12578780	0.80[EUR][1000 genomes]
rs1376929	0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1376930	1.00[CHB][hapmap];0.84[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.90[TSI][hapmap];0.88[ASN][1000 genomes]
rs1962405	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2406679	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2708079	0.95[CHB][hapmap];0.86[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.93[TSI][hapmap];0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4768018	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4768419	0.88[ASN][1000 genomes]
rs61924423	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7137124	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7966423	0.80[EUR][1000 genomes]
rs7976735	0.83[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1044790	chr12:42672255-43344184	Enhancers Bivalent Enhancer Strong transcription Weak transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	29 gene(s)	inside rSNPs	diseases
2	nsv541483	chr12:42672255-43344184	Active TSS Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	29 gene(s)	inside rSNPs	diseases
3	nsv832388	chr12:42878328-43087069	Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
4	nsv524513	chr12:42886217-42895401	Weak transcription Enhancers Strong transcription Genic enhancers	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11181527	TMEFF1	trans	parietal	SCAN

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:42878600-42904800	Weak transcription	Right Atrium	heart
2	chr12:42878800-42896400	Weak transcription	Fetal Kidney	kidney
3	chr12:42878800-42898000	Weak transcription	HSMMtube	muscle
4	chr12:42878800-42902000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr12:42879000-42898000	Weak transcription	NH-A	brain
6	chr12:42879000-42901000	Weak transcription	HSMM	muscle
7	chr12:42884200-42896200	Weak transcription	Lung	lung
8	chr12:42885400-42913600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr12:42886400-42892800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr12:42886800-42904800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr12:42889400-42898000	Weak transcription	Fetal Stomach	stomach
12	chr12:42889800-42902800	Weak transcription	Fetal Muscle Trunk	muscle
13	chr12:42890000-42898600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr12:42890600-42905800	Weak transcription	Osteobl	bone
15	chr12:42891000-42897800	Weak transcription	Fetal Lung	lung
16	chr12:42891000-42898000	Weak transcription	Fetal Muscle Leg	muscle
17	chr12:42891000-42898200	Weak transcription	HUVEC	blood vessel
18	chr12:42891000-42910200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr12:42892400-42893000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr12:42892600-42892800	Enhancers	Right Ventricle	heart
21	chr12:42892600-42893400	Enhancers	Fetal Heart	heart

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