Variant report

Variant	rs188713606
Chromosome Location	chr12:12674366-12674367
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	REST	chr12:12672087-12675366	H1-neurons	neurons:	n/a	n/a
2	POLR2A	chr12:12673684-12674633	H1-neurons	neurons:	n/a	n/a
3	TAF1	chr12:12673627-12674520	H1-neurons	neurons:	n/a	n/a
4	CEBPB	chr12:12674060-12674368	HepG2	liver:	n/a	chr12:12674334-12674351
5	REST	chr12:12673697-12674631	H1-neurons	neurons:	n/a	n/a
6	TAF1	chr12:12673791-12674556	H1-neurons	neurons:	n/a	n/a
7	POLR2A	chr12:12673636-12674660	H1-neurons	neurons:	n/a	n/a
8	JUND	chr12:12673923-12674521	HepG2	liver:	n/a	chr12:12674276-12674288

No.	Distal block	Cell Line	Cell type
1	chr12:12673127..12675193-chr12:12712366..12713939,3	MCF-7	breast:
2	chr12:12551031..12553032-chr12:12674320..12676066,2	MCF-7	breast:
3	chr12:12672853..12675163-chr12:12712393..12714277,2	K562	blood:
4	chr12:12672602..12674761-chr12:12714230..12715790,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-GPR19-3	chr12:12674261-12674397	NONHSAT026985

Variant related genes	Relation type
DUSP16	TF binding region
ENSG00000111266	Chromatin interaction

Extended variants
information (count: 6 )
Associated
traits (count: 0)

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	esv2758295	chr12:12620654-12783124	Active TSS Weak transcription Flanking Active TSS Strong transcription Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
2	esv2759880	chr12:12620654-12783124	Enhancers Active TSS Flanking Active TSS Weak transcription Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
3	nsv898811	chr12:12655443-12928295	Flanking Active TSS Weak transcription Enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
4	nsv523366	chr12:12665246-12679124	Strong transcription Weak transcription Enhancers Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	esv33583	chr12:12665776-12679108	Flanking Active TSS Weak transcription Genic enhancers Strong transcription Enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv523022	chr12:12673551-12688181	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:109 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:12630800-12681000	Weak transcription	Colonic Mucosa	Colon
2	chr12:12634400-12685200	Weak transcription	Hela-S3	cervix
3	chr12:12639400-12679600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
4	chr12:12641600-12686200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr12:12659800-12678600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
6	chr12:12660000-12681800	Weak transcription	Fetal Kidney	kidney
7	chr12:12660400-12686200	Weak transcription	Rectal Smooth Muscle	rectum
8	chr12:12660800-12676600	Weak transcription	Pancreas	Pancrea
9	chr12:12660800-12679800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr12:12664000-12690400	Weak transcription	NHLF	lung
11	chr12:12665000-12684400	Weak transcription	NHDF-Ad	bronchial
12	chr12:12665000-12685600	Weak transcription	HMEC	breast
13	chr12:12665000-12686200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr12:12665800-12678800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
15	chr12:12666800-12681200	Weak transcription	Colon Smooth Muscle	Colon
16	chr12:12667000-12674400	Strong transcription	Fetal Thymus	thymus
17	chr12:12667000-12675000	Weak transcription	Spleen	Spleen
18	chr12:12667400-12686400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
19	chr12:12667600-12680800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr12:12668000-12680800	Weak transcription	Right Atrium	heart
21	chr12:12668800-12674600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
22	chr12:12669200-12674400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
23	chr12:12669200-12674400	Strong transcription	Adipose Nuclei	Adipose
24	chr12:12670000-12674400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
25	chr12:12670000-12674400	Genic enhancers	Fetal Intestine Large	intestine
26	chr12:12670000-12677400	Enhancers	Stomach Mucosa	stomach
27	chr12:12671000-12674400	Strong transcription	GM12878-XiMat	blood
28	chr12:12671200-12674400	Active TSS	Brain Substantia Nigra	brain
29	chr12:12671200-12674600	Active TSS	Brain Hippocampus Middle	brain
30	chr12:12671200-12676200	Weak transcription	Gastric	stomach
31	chr12:12671200-12677000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
32	chr12:12671200-12681200	Weak transcription	HUVEC	blood vessel
33	chr12:12671400-12686200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
34	chr12:12671400-12686200	Weak transcription	Fetal Stomach	stomach
35	chr12:12671600-12675000	Active TSS	Brain Inferior Temporal Lobe	brain
36	chr12:12671600-12678600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
37	chr12:12671600-12680800	Weak transcription	Lung	lung
38	chr12:12671800-12674400	Genic enhancers	ES-UCSF4 Cell Line	embryonic stem cell
39	chr12:12672000-12678000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
40	chr12:12672400-12674400	Genic enhancers	H1 Cell Line	embryonic stem cell
41	chr12:12672400-12680600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
42	chr12:12672600-12674600	Genic enhancers	Primary T helper cells PMA-I stimulated	--
43	chr12:12672600-12674800	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
44	chr12:12672600-12677800	Weak transcription	HSMMtube	muscle
45	chr12:12672800-12674400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
46	chr12:12672800-12691200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
47	chr12:12673000-12674400	Strong transcription	Liver	Liver
48	chr12:12673000-12674400	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
49	chr12:12673000-12674800	Weak transcription	Rectal Mucosa Donor 29	rectum
50	chr12:12673000-12675400	Enhancers	iPS-18 Cell Line	embryonic stem cell

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