Variant report

Variant	rs565681881
Chromosome Location	chr2:57987759-57987760
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	CTCF	chr2:57987740-57987890	GM12865	blood:	n/a	n/a
2	CTCF	chr2:57987720-57987870	GM12873	blood:	n/a	n/a
3	BATF	chr2:57987544-57987875	GM12878	blood:	n/a	n/a
4	TCF12	chr2:57987638-57987886	GM12878	blood:	n/a	chr2:57987741-57987751 chr2:57987740-57987747
5	CTCF	chr2:57987720-57987870	GM12874	blood:	n/a	n/a
6	IKZF1	chr2:57987410-57987953	GM12878	blood:	n/a	n/a
7	MXI1	chr2:57987015-57987965	GM12878	blood:	n/a	n/a
8	RAD21	chr2:57986847-57987810	H1-hESC	embryonic stem cell:	n/a	chr2:57987139-57987153 chr2:57987143-57987155 chr2:57987101-57987113 chr2:57987140-57987147 chr2:57987138-57987157
9	EBF1	chr2:57987043-57987925	GM12878	blood:	n/a	n/a
10	ZNF143	chr2:57987671-57987905	GM12878	blood:	n/a	n/a
11	WRNIP1	chr2:57987032-57987834	GM12878	blood:	n/a	n/a
12	YY1	chr2:57987673-57987898	GM12878	blood:	n/a	n/a
13	RAD21	chr2:57986938-57987968	GM12878	blood:	n/a	chr2:57987139-57987153 chr2:57987143-57987155 chr2:57987101-57987113 chr2:57987140-57987147 chr2:57987138-57987157
14	RCOR1	chr2:57986975-57987893	GM12878	blood:	n/a	n/a
15	CTCF	chr2:57987740-57987890	GM12869	blood:	n/a	n/a
16	BATF	chr2:57987600-57987899	GM12878	blood:	n/a	n/a
17	CTCF	chr2:57987720-57987870	GM12872	blood:	n/a	n/a
18	CTCF	chr2:57987700-57987850	GM12875	blood:	n/a	n/a
19	PBX3	chr2:57987673-57987858	GM12878	blood:	n/a	n/a
20	EP300	chr2:57987628-57987974	GM12878	blood:	n/a	chr2:57987675-57987684
21	EP300	chr2:57987007-57987930	GM12878	blood:	n/a	chr2:57987675-57987684
22	CTCF	chr2:57987740-57987890	GM12873	blood:	n/a	n/a
23	CTCF	chr2:57986623-57988126	A549	lung:	n/a	chr2:57987139-57987160 chr2:57987138-57987154 chr2:57987137-57987155 chr2:57987142-57987150
24	NFIC	chr2:57986921-57988035	GM12878	blood:	n/a	n/a
25	SMC3	chr2:57986732-57988020	GM12878	blood:	n/a	chr2:57987139-57987153
26	FOXM1	chr2:57987652-57987971	GM12878	blood:	n/a	n/a
27	RUNX3	chr2:57986990-57988002	GM12878	blood:	n/a	n/a
28	RAD21	chr2:57986870-57987950	GM12878	blood:	n/a	chr2:57987139-57987153 chr2:57987143-57987155 chr2:57987101-57987113 chr2:57987140-57987147 chr2:57987138-57987157
29	IRF4	chr2:57987513-57987911	GM12878	blood:	n/a	n/a
30	CTCF	chr2:57987741-57988019	GM12878	blood:	n/a	n/a
31	CTCF	chr2:57987740-57987890	GM12874	blood:	n/a	n/a
32	RUNX3	chr2:57986993-57988058	GM12878	blood:	n/a	n/a
33	TCF12	chr2:57987631-57987806	GM12878	blood:	n/a	chr2:57987741-57987751 chr2:57987740-57987747

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:57986735..57987942-chr2:58674900..58675939,5	MCF-7	breast:

Variant related genes	Relation type
ENSG00000271615	TF binding region

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	nsv1007118	chr2:57562051-58147588	Weak transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv874193	chr2:57758608-58066673	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv1006688	chr2:57822953-58030203	Weak transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv874196	chr2:57946148-58220320	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv874197	chr2:57978858-58068741	Enhancers Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv834148	chr2:57979661-58119213	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv874198	chr2:57987593-58068741	Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:55 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:57985400-57988400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr2:57986200-57987800	Enhancers	Primary B cells from peripheral blood	blood
3	chr2:57986200-57987800	Enhancers	Duodenum Smooth Muscle	Duodenum
4	chr2:57986400-57987800	Active TSS	Brain Substantia Nigra	brain
5	chr2:57986400-57988000	Active TSS	Brain Angular Gyrus	brain
6	chr2:57986600-57988000	Active TSS	Brain Cingulate Gyrus	brain
7	chr2:57986600-57988000	Enhancers	Fetal Lung	lung
8	chr2:57986800-57987800	Enhancers	Primary monocytes fromperipheralblood	blood
9	chr2:57986800-57987800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr2:57986800-57987800	Active TSS	Brain Inferior Temporal Lobe	brain
11	chr2:57986800-57987800	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
12	chr2:57986800-57987800	Enhancers	Fetal Heart	heart
13	chr2:57986800-57987800	Enhancers	Rectal Mucosa Donor 29	rectum
14	chr2:57987000-57987800	Enhancers	HUES48 Cell Line	embryonic stem cell
15	chr2:57987000-57987800	Enhancers	Primary B cells from cord blood	blood
16	chr2:57987000-57987800	Flanking Active TSS	Primary hematopoietic stem cells	blood
17	chr2:57987000-57987800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
18	chr2:57987000-57987800	Active TSS	Brain Anterior Caudate	brain
19	chr2:57987200-57987800	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
20	chr2:57987200-57987800	Enhancers	Primary T helper naive cells from peripheral blood	blood
21	chr2:57987200-57987800	Flanking Active TSS	Duodenum Mucosa	Duodenum
22	chr2:57987200-57987800	Flanking Active TSS	Fetal Brain Male	brain
23	chr2:57987200-57987800	Enhancers	Fetal Intestine Large	intestine
24	chr2:57987200-57987800	Flanking Active TSS	GM12878-XiMat	blood
25	chr2:57987200-57987800	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
26	chr2:57987400-57987800	Enhancers	ES-I3 Cell Line	embryonic stem cell
27	chr2:57987400-57987800	Enhancers	iPS-15b Cell Line	embryonic stem cell
28	chr2:57987400-57987800	Active TSS	Breast Myoepithelial Primary Cells	Breast
29	chr2:57987400-57987800	Enhancers	Muscle Satellite Cultured Cells	--
30	chr2:57987400-57987800	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
31	chr2:57987400-57987800	Enhancers	Liver	Liver
32	chr2:57987400-57987800	Active TSS	Fetal Brain Female	brain
33	chr2:57987400-57987800	Flanking Active TSS	Pancreatic Islets	Pancreatic Islet
34	chr2:57987400-57987800	Active TSS	Thymus	Thymus
35	chr2:57987400-57987800	Enhancers	Dnd41	blood
36	chr2:57987400-58009800	Weak transcription	Pancreas	Pancrea
37	chr2:57987600-57987800	Flanking Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr2:57987600-57987800	Bivalent Enhancer	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
39	chr2:57987600-57987800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
40	chr2:57987600-57987800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
41	chr2:57987600-57987800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
42	chr2:57987600-57987800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
43	chr2:57987600-57987800	Flanking Active TSS	Brain Germinal Matrix	brain
44	chr2:57987600-57987800	Flanking Active TSS	Brain Hippocampus Middle	brain
45	chr2:57987600-57987800	Enhancers	Colon Smooth Muscle	Colon
46	chr2:57987600-57987800	Enhancers	Fetal Muscle Leg	muscle
47	chr2:57987600-57987800	Enhancers	Fetal Thymus	thymus
48	chr2:57987600-57987800	Bivalent Enhancer	HepG2	liver
49	chr2:57987600-57987800	Enhancers	Osteobl	bone
50	chr2:57987600-57988000	Bivalent Enhancer	HUES64 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links