Variant report

Variant	rs1797559
Chromosome Location	chr12:49933631-49933632
allele	C/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	CTCF	chr12:49933580-49933730	GM12870	blood:	n/a	n/a
2	RCOR1	chr12:49933609-49933740	K562	blood:	n/a	n/a
3	MAZ	chr12:49932492-49933675	IMR90	lung:	n/a	chr12:49932763-49932772
4	GATA2	chr12:49933488-49933869	SH-SY5Y	brain:	n/a	chr12:49933706-49933713 chr12:49933704-49933714 chr12:49933706-49933713 chr12:49933695-49933712 chr12:49933706-49933713 chr12:49933701-49933717 chr12:49933704-49933713
5	SUZ12	chr12:49933283-49934929	H1-hESC	embryonic stem cell:	n/a	n/a
6	MTA3	chr12:49933392-49933725	GM12878	blood:	n/a	n/a
7	RCOR1	chr12:49933588-49933704	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr12:49930852..49937653-chr12:49953841..49959391,7	K562	blood:
2	chr12:49759353..49761548-chr12:49931777..49934189,4	K562	blood:
3	chr12:49759353..49762276-chr12:49930939..49933731,4	K562	blood:
4	chr12:49930865..49935032-chr12:49959689..49963246,5	K562	blood:
5	chr12:49931420..49936579-chr12:49960006..49963071,6	MCF-7	breast:
6	chr12:49657699..49660591-chr12:49932809..49935394,2	MCF-7	breast:

Variant related genes	Relation type
KCNH3	TF binding region
ENSG00000187778	Chromatin interaction
ENSG00000123352	Chromatin interaction
ENSG00000258101	Chromatin interaction
ENSG00000110844	Chromatin interaction
ENSG00000167553	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	nsv899070	chr12:49811311-49941500	Weak transcription Bivalent Enhancer Enhancers Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
2	nsv832406	chr12:49860693-50062136	Weak transcription Flanking Bivalent TSS/Enh Strong transcription Enhancers Genic enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
3	nsv482795	chr12:49897633-50068686	Flanking Active TSS Weak transcription Active TSS Enhancers Transcr. at gene 5' and 3' Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
4	esv1801776	chr12:49915354-49934565	Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Active TSS Enhancers Flanking Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
5	nsv899071	chr12:49927148-49955935	Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Bivalent Enhancer Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
6	esv3431223	chr12:49931235-49934833	Enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Weak transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:72 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:49931200-49935000	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
2	chr12:49931600-49933800	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
3	chr12:49931800-49934200	Active TSS	Brain Inferior Temporal Lobe	brain
4	chr12:49932400-49933800	Bivalent/Poised TSS	Primary neutrophils fromperipheralblood	blood
5	chr12:49932400-49933800	Bivalent Enhancer	Primary hematopoietic stem cells short term culture	blood
6	chr12:49932400-49933800	Bivalent/Poised TSS	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr12:49932400-49934000	Active TSS	Brain Anterior Caudate	brain
8	chr12:49932400-49934000	Active TSS	Brain Cingulate Gyrus	brain
9	chr12:49932400-49934000	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
10	chr12:49932800-49933800	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
11	chr12:49932800-49934200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
12	chr12:49932800-49934200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
13	chr12:49932800-49934200	Bivalent Enhancer	Fetal Muscle Leg	muscle
14	chr12:49932800-49934200	Bivalent Enhancer	Placenta	Placenta
15	chr12:49932800-49935400	Bivalent Enhancer	Fetal Muscle Trunk	muscle
16	chr12:49933000-49934000	Bivalent Enhancer	Cortex derived primary cultured neurospheres	brain
17	chr12:49933000-49942600	Weak transcription	Pancreas	Pancrea
18	chr12:49933200-49933800	Bivalent Enhancer	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr12:49933200-49933800	Flanking Bivalent TSS/Enh	Primary monocytes fromperipheralblood	blood
20	chr12:49933200-49933800	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
21	chr12:49933200-49933800	Bivalent Enhancer	Stomach Mucosa	stomach
22	chr12:49933200-49933800	Flanking Bivalent TSS/Enh	Monocytes-CD14+_RO01746	blood
23	chr12:49933200-49934000	Flanking Bivalent TSS/Enh	Primary T regulatory cells fromperipheralblood	blood
24	chr12:49933200-49934000	Bivalent Enhancer	Primary Natural Killer cells fromperipheralblood	blood
25	chr12:49933200-49934000	Bivalent/Poised TSS	Fetal Brain Female	brain
26	chr12:49933200-49934200	Flanking Active TSS	Breast Myoepithelial Primary Cells	Breast
27	chr12:49933200-49934200	Bivalent Enhancer	Fetal Thymus	thymus
28	chr12:49933200-49934400	Bivalent Enhancer	Primary B cells from peripheral blood	blood
29	chr12:49933400-49933800	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
30	chr12:49933400-49933800	Bivalent Enhancer	ES-WA7 Cell Line	embryonic stem cell
31	chr12:49933400-49933800	Bivalent Enhancer	H1 Cell Line	embryonic stem cell
32	chr12:49933400-49933800	Flanking Bivalent TSS/Enh	HUES6 Cell Line	embryonic stem cell
33	chr12:49933400-49933800	Bivalent Enhancer	iPS DF 6.9 Cell Line	embryonic stem cell
34	chr12:49933400-49933800	Flanking Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
35	chr12:49933400-49933800	Flanking Bivalent TSS/Enh	Primary T killer memory cells from peripheral blood	blood
36	chr12:49933400-49933800	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Male	--
37	chr12:49933400-49933800	Bivalent/Poised TSS	Colonic Mucosa	Colon
38	chr12:49933400-49933800	Bivalent Enhancer	Dnd41	blood
39	chr12:49933400-49934000	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Female	--
40	chr12:49933400-49934000	Bivalent Enhancer	Foreskin Keratinocyte Primary Cells skin02	Skin
41	chr12:49933400-49934000	Bivalent Enhancer	Fetal Stomach	stomach
42	chr12:49933400-49934200	Bivalent Enhancer	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
43	chr12:49933400-49934200	Bivalent Enhancer	Fetal Lung	lung
44	chr12:49933400-49934200	Bivalent Enhancer	GM12878-XiMat	blood
45	chr12:49933400-49934400	Bivalent Enhancer	iPS DF 19.11 Cell Line	embryonic stem cell
46	chr12:49933400-49934600	Bivalent/Poised TSS	Brain Hippocampus Middle	brain
47	chr12:49933400-49934800	Bivalent Enhancer	Fetal Intestine Large	intestine
48	chr12:49933400-49934800	Bivalent Enhancer	Fetal Intestine Small	intestine
49	chr12:49933400-49935000	Bivalent/Poised TSS	Foreskin Fibroblast Primary Cells skin02	Skin
50	chr12:49933400-49935400	Bivalent Enhancer	ES-UCSF4 Cell Line	embryonic stem cell

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