Variant report

Variant	rs73240425
Chromosome Location	chr12:20848676-20848677
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SLCO1C1-1	chr12:20848670-20848741	NONHSAT027232
2	lnc-SLCO1C1-1	chr12:20848670-20848741	NONHSAT027233
3	lnc-SLCO1C1-1	chr12:20848670-20848741	NONHSAT027231

Extended variants
information (count: 10 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs60349574	1.00[AFR][1000 genomes]
rs73240408	0.84[AFR][1000 genomes]
rs73240427	0.85[AFR][1000 genomes]
rs73240451	1.00[AFR][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	nsv1048067	chr12:20363755-20874845	Enhancers Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
2	nsv541408	chr12:20363755-20874845	Enhancers Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
3	nsv1043890	chr12:20659151-21309993	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
4	nsv541410	chr12:20659151-21309993	Flanking Bivalent TSS/Enh Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
5	nsv1054997	chr12:20682009-21292602	Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
6	nsv557704	chr12:20842041-20893980	Flanking Active TSS Enhancers Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:20838800-20849800	Weak transcription	Hela-S3	cervix
2	chr12:20847000-20849400	Enhancers	iPS-18 Cell Line	embryonic stem cell
3	chr12:20847200-20848800	Enhancers	HUES48 Cell Line	embryonic stem cell
4	chr12:20847600-20849400	Enhancers	iPS-15b Cell Line	embryonic stem cell
5	chr12:20847800-20849400	Enhancers	HUES64 Cell Line	embryonic stem cell
6	chr12:20847800-20849800	Enhancers	HUES6 Cell Line	embryonic stem cell
7	chr12:20847800-20850000	Active TSS	Brain Anterior Caudate	brain
8	chr12:20848000-20848800	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr12:20848000-20849000	Enhancers	iPS-20b Cell Line	embryonic stem cell
10	chr12:20848000-20849200	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr12:20848000-20849800	Active TSS	Brain Hippocampus Middle	brain
12	chr12:20848200-20848800	Enhancers	H1 Cell Line	embryonic stem cell
13	chr12:20848200-20848800	Enhancers	NHDF-Ad	bronchial
14	chr12:20848200-20849600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
15	chr12:20848400-20848800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr12:20848400-20848800	Active TSS	Brain Cingulate Gyrus	brain
17	chr12:20848400-20848800	Flanking Active TSS	Fetal Stomach	stomach
18	chr12:20848400-20849000	Active TSS	Brain Inferior Temporal Lobe	brain
19	chr12:20848400-20849400	Active TSS	Brain Substantia Nigra	brain
20	chr12:20848400-20849400	Weak transcription	Duodenum Smooth Muscle	Duodenum
21	chr12:20848400-20849400	Weak transcription	Fetal Lung	lung
22	chr12:20848400-20849800	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
23	chr12:20848400-20849800	Enhancers	Fetal Muscle Leg	muscle
24	chr12:20848400-20851800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
25	chr12:20848600-20848800	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr12:20848600-20849000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr12:20848600-20849000	Active TSS	Cortex derived primary cultured neurospheres	brain
28	chr12:20848600-20849200	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr12:20848600-20849400	Enhancers	Adipose Nuclei	Adipose
30	chr12:20848600-20851600	Weak transcription	H9 Cell Line	embryonic stem cell
31	chr12:20848600-20852000	Active TSS	Fetal Brain Female	brain

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