Variant report

Variant	rs569407345
Chromosome Location	chr3:119012821-119012822
allele	-/AGAA
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	RAD21	chr3:119012583-119012870	H1-hESC	embryonic stem cell:	n/a	n/a
2	CHD2	chr3:119012557-119014238	GM12878	blood:	n/a	chr3:119013345-119013355 chr3:119012917-119012927
3	POLR2A	chr3:119012596-119014282	GM18505	blood:	n/a	n/a
4	TBP	chr3:119012625-119013616	GM12878	blood:	n/a	n/a
5	SP1	chr3:119012565-119013687	GM12878	blood:	n/a	chr3:119013148-119013162
6	EBF1	chr3:119012567-119013620	GM12878	blood:	n/a	n/a
7	POLR2A	chr3:119012499-119014302	GM12892	blood:	n/a	n/a
8	CHD1	chr3:119012717-119013297	GM12878	blood:	n/a	chr3:119012917-119012927
9	MAX	chr3:119012753-119014079	A549	lung:	n/a	chr3:119013875-119013885
10	YY1	chr3:119012619-119012985	H1-hESC	embryonic stem cell:	n/a	chr3:119012964-119012978
11	POLR2A	chr3:119012789-119013933	HUVEC	blood vessel:	n/a	n/a
12	POLR2A	chr3:119012591-119013716	GM12891	blood:	n/a	n/a
13	RCOR1	chr3:119012486-119014032	GM12878	blood:	n/a	n/a
14	RUNX3	chr3:119012385-119013728	GM12878	blood:	n/a	n/a
15	CHD2	chr3:119012751-119013125	Hela-S3	cervix:	n/a	chr3:119012917-119012927
16	RFX5	chr3:119012540-119012924	GM12878	blood:	n/a	n/a
17	ZNF263	chr3:119012561-119014293	HEK293-T-REx	kidney:	n/a	chr3:119012916-119012925 chr3:119014190-119014199
18	SIN3AK20	chr3:119012638-119013908	PANC-1	pancreas:	n/a	n/a
19	POLR2A	chr3:119012480-119014338	GM12892	blood:	n/a	n/a
20	TAF1	chr3:119012804-119013201	GM12878	blood:	n/a	n/a
21	POLR2A	chr3:119012549-119014275	GM18526	blood:	n/a	n/a
22	POLR2A	chr3:119012526-119014245	GM19099	blood:	n/a	n/a
23	MEF2C	chr3:119012492-119013099	GM12878	blood:	n/a	n/a
24	EP300	chr3:119012412-119012822	SK-N-SH_RA	brain:	n/a	n/a
25	SIN3AK20	chr3:119012629-119013364	SK-N-SH	brain:	n/a	n/a
26	GABPA	chr3:119012768-119013390	SK-N-SH	brain:	n/a	n/a
27	NRF1	chr3:119012785-119013065	GM12878	blood:	n/a	n/a
28	RAD21	chr3:119012436-119013312	SK-N-SH_RA	brain:	n/a	n/a
29	POLR2A	chr3:119012614-119014275	GM12892	blood:	n/a	n/a
30	CHD2	chr3:119012802-119013218	H1-hESC	embryonic stem cell:	n/a	chr3:119012917-119012927
31	ZNF143	chr3:119012532-119012826	H1-hESC	embryonic stem cell:	n/a	n/a
32	EP300	chr3:119012408-119012871	SK-N-SH_RA	brain:	n/a	n/a
33	JUN	chr3:119012689-119012887	H1-hESC	embryonic stem cell:	n/a	n/a
34	TCF7L2	chr3:119012472-119013282	Hela-S3	cervix:	n/a	chr3:119012928-119012937 chr3:119012925-119012939
35	EP300	chr3:119012596-119013034	GM12878	blood:	n/a	chr3:119012940-119012956
36	TBL1XR1	chr3:119012552-119013629	GM12878	blood:	n/a	n/a
37	RCOR1	chr3:119012639-119013018	Hela-S3	cervix:	n/a	n/a
38	SIN3A	chr3:119012516-119014221	H1-hESC	embryonic stem cell:	n/a	n/a
39	POU2F2	chr3:119012508-119014271	GM12878	blood:	n/a	chr3:119013874-119013886 chr3:119012565-119012578 chr3:119012565-119012578
40	POLR2A	chr3:119012706-119013563	GM12891	blood:	n/a	n/a
41	ELF1	chr3:119012784-119013106	K562	blood:	n/a	chr3:119012948-119012961
42	POLR2A	chr3:119012511-119013544	SK-N-SH	brain:	n/a	n/a
43	IKZF1	chr3:119012598-119013535	GM12878	blood:	n/a	n/a
44	RELA	chr3:119012499-119014254	GM18951	blood:	n/a	n/a
45	PAX5	chr3:119012819-119013038	GM12878	blood:	n/a	n/a
46	EBF1	chr3:119012465-119013876	GM12878	blood:	n/a	n/a
47	POLR2A	chr3:119012347-119014210	GM12878	blood:	n/a	n/a
48	POLR2A	chr3:119012642-119014148	GM12892	blood:	n/a	n/a
49	MXI1	chr3:119012051-119014329	IMR90	lung:	n/a	n/a
50	TCF7L2	chr3:119012496-119013273	MCF-7	breast:	n/a	chr3:119012928-119012937 chr3:119012925-119012939

No.	Distal block	Cell Line	Cell type
1	chr3:119011699..119014378-chr3:119015999..119019083,3	MCF-7	breast:
2	chr3:119012312..119014941-chr3:119040203..119043471,4	MCF-7	breast:
3	chr3:119011961..119014558-chr3:119015081..119019200,4	MCF-7	breast:
4	chr3:119011662..119015799-chr3:119040784..119043293,4	MCF-7	breast:

Variant related genes	Relation type
ARHGAP31	TF binding region
RPS26P21	TF binding region
ENSG00000242829	Chromatin interaction
ENSG00000241155	Chromatin interaction

Extended variants
information (count: 3 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3487859	chr3:118570588-119419623	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
2	esv3487860	chr3:118570588-119419623	Strong transcription Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
3	nsv829694	chr3:119011488-119153579	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:119011800-119014000	Flanking Bivalent TSS/Enh	Dnd41	blood
2	chr3:119012200-119013000	Flanking Active TSS	Fetal Thymus	thymus
3	chr3:119012200-119014200	Flanking Active TSS	Primary B cells from cord blood	blood
4	chr3:119012200-119014400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
5	chr3:119012200-119014800	Active TSS	NHDF-Ad	bronchial
6	chr3:119012200-119015000	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr3:119012200-119015600	Active TSS	Fetal Muscle Trunk	muscle
8	chr3:119012400-119013000	Flanking Bivalent TSS/Enh	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr3:119012400-119013000	Flanking Active TSS	HMEC	breast
10	chr3:119012400-119013000	Flanking Active TSS	HSMM	muscle
11	chr3:119012400-119013000	Flanking Active TSS	HUVEC	blood vessel
12	chr3:119012400-119013200	Flanking Active TSS	Fetal Brain Male	brain
13	chr3:119012400-119013400	Flanking Active TSS	Primary hematopoietic stem cells	blood
14	chr3:119012400-119013400	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr3:119012400-119013400	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
16	chr3:119012400-119013400	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
17	chr3:119012400-119013800	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr3:119012400-119013800	Active TSS	Brain Angular Gyrus	brain
19	chr3:119012400-119013800	Active TSS	Brain Germinal Matrix	brain
20	chr3:119012400-119014200	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
21	chr3:119012400-119014400	Active TSS	H1 Derived Mesenchymal Stem Cells	ES cell derived
22	chr3:119012400-119014400	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
23	chr3:119012400-119014400	Active TSS	Sigmoid Colon	Sigmoid Colon
24	chr3:119012400-119014600	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
25	chr3:119012400-119014800	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
26	chr3:119012400-119014800	Active TSS	Brain Anterior Caudate	brain
27	chr3:119012400-119014800	Active TSS	Fetal Kidney	kidney
28	chr3:119012400-119015000	Active TSS	Aorta	Aorta
29	chr3:119012400-119015200	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
30	chr3:119012400-119015200	Active TSS	Breast Myoepithelial Primary Cells	Breast
31	chr3:119012400-119015200	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
32	chr3:119012400-119015200	Active TSS	NHLF	lung
33	chr3:119012400-119015400	Active TSS	Fetal Intestine Small	intestine
34	chr3:119012400-119015600	Active TSS	Psoas Muscle	Psoas
35	chr3:119012400-119015800	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
36	chr3:119012400-119015800	Active TSS	Rectal Smooth Muscle	rectum
37	chr3:119012400-119016000	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
38	chr3:119012400-119016000	Active TSS	Brain Cingulate Gyrus	brain
39	chr3:119012400-119016200	Active TSS	Duodenum Smooth Muscle	Duodenum
40	chr3:119012400-119016200	Active TSS	Left Ventricle	heart
41	chr3:119012400-119016200	Active TSS	Right Ventricle	heart
42	chr3:119012600-119013000	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
43	chr3:119012600-119013000	Active TSS	K562	blood
44	chr3:119012600-119013400	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
45	chr3:119012600-119013400	Flanking Bivalent TSS/Enh	HepG2	liver
46	chr3:119012600-119013600	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
47	chr3:119012600-119013800	Active TSS	Primary T helper naive cells fromperipheralblood	blood
48	chr3:119012600-119013800	Active TSS	Primary T killer memory cells from peripheral blood	blood
49	chr3:119012600-119013800	Flanking Active TSS	Liver	Liver
50	chr3:119012600-119014000	Active TSS	Primary T cells from cord blood	blood

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