Variant report

Variant	rs557462543
Chromosome Location	chr12:30952980-30952981
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-TSPAN11-2	chr12:30952844-30953245	NONHSAT027518

Extended variants
information (count: 7 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3343291	chr12:30455597-30992837	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	48 gene(s)	inside rSNPs	diseases
2	nsv832361	chr12:30794030-30997241	Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS Weak transcription Active TSS Enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
3	nsv949148	chr12:30800040-31131712	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
4	esv34091	chr12:30927650-31061815	Active TSS Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	37 gene(s)	inside rSNPs	diseases
5	nsv1052957	chr12:30951520-31191197	Weak transcription ZNF genes & repeats Bivalent Enhancer Active TSS Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
6	nsv541439	chr12:30951520-31191197	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
7	nsv1052869	chr12:30951520-31399162	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:30950200-30954600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr12:30950200-30956400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr12:30950200-30956600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr12:30950200-30960200	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr12:30950200-30960200	Weak transcription	Pancreas	Pancrea
6	chr12:30950400-30953000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr12:30950400-30953000	Weak transcription	HMEC	breast
8	chr12:30950400-30954600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
9	chr12:30950400-30954600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr12:30950400-30957000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr12:30950400-30957200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
12	chr12:30950400-30960000	Weak transcription	HUVEC	blood vessel
13	chr12:30950400-30960200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr12:30950400-30960200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
15	chr12:30950400-30960200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr12:30950800-30954600	Weak transcription	H1 Cell Line	embryonic stem cell
17	chr12:30950800-30955800	Weak transcription	HUES48 Cell Line	embryonic stem cell
18	chr12:30950800-30957000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr12:30950800-30957000	Weak transcription	NHEK	skin
20	chr12:30950800-30960200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
21	chr12:30951000-30956400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
22	chr12:30951000-30956600	Strong transcription	NH-A	brain
23	chr12:30951200-30953800	Strong transcription	Hela-S3	cervix
24	chr12:30951200-30957000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
25	chr12:30951400-30955200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
26	chr12:30951400-30956400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
27	chr12:30951600-30958200	Weak transcription	HSMM	muscle
28	chr12:30951800-30953800	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
29	chr12:30951800-30955200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr12:30952000-30953000	Weak transcription	Osteobl	bone
31	chr12:30952400-30956600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
32	chr12:30952400-30956600	Strong transcription	Muscle Satellite Cultured Cells	--
33	chr12:30952600-30954000	Strong transcription	iPS-15b Cell Line	embryonic stem cell
34	chr12:30952600-30955600	Strong transcription	HUES64 Cell Line	embryonic stem cell
35	chr12:30952800-30953600	Strong transcription	A549	lung
36	chr12:30952800-30954000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
37	chr12:30952800-30955800	Strong transcription	iPS-20b Cell Line	embryonic stem cell

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