Variant report

Variant	rs539773168
Chromosome Location	chr3:20080356-20080357
allele	A/C
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	IRF1	chr3:20080209-20081645	K562	blood:	n/a	chr3:20081139-20081153 chr3:20081139-20081149
2	RCOR1	chr3:20080062-20080912	K562	blood:	n/a	n/a
3	ARID3A	chr3:20080060-20080685	K562	blood:	n/a	n/a
4	MYC	chr3:20080133-20083357	K562	blood:	n/a	chr3:20080865-20080872 chr3:20081324-20081334 chr3:20081371-20081381 chr3:20083104-20083114
5	GATA3	chr3:20080084-20080554	MCF-7	breast:	n/a	chr3:20080312-20080328 chr3:20080314-20080326
6	MAZ	chr3:20080126-20083442	K562	blood:	n/a	chr3:20080865-20080872 chr3:20081324-20081334 chr3:20081371-20081381 chr3:20083104-20083114
7	GATA2	chr3:20080079-20080604	SH-SY5Y	brain:	n/a	chr3:20080566-20080573 chr3:20080312-20080328 chr3:20080314-20080326 chr3:20080314-20080328
8	TEAD4	chr3:20080038-20080727	K562	blood:	n/a	n/a
9	EP300	chr3:20080287-20080481	GM12878	blood:	n/a	n/a
10	MXI1	chr3:20080006-20083810	SK-N-SH	brain:	n/a	n/a
11	CUX1	chr3:20080064-20080943	K562	blood:	n/a	n/a
12	UBTF	chr3:20080217-20083312	K562	blood:	n/a	n/a
13	UBTF	chr3:20080190-20080459	K562	blood:	n/a	n/a
14	MYC	chr3:20080199-20081783	NB4	blood:	n/a	chr3:20080865-20080872 chr3:20081324-20081334 chr3:20081371-20081381
15	MXI1	chr3:20080332-20083378	GM12878	blood:	n/a	n/a
16	GATA3	chr3:20080041-20080487	SH-SY5Y	brain:	n/a	chr3:20080312-20080328 chr3:20080314-20080326
17	EP300	chr3:20080123-20081647	K562	blood:	n/a	chr3:20080782-20080796
18	GATA1	chr3:20080054-20081717	PBDE	blood:	n/a	chr3:20080566-20080573 chr3:20080312-20080328 chr3:20080314-20080326
19	MAX	chr3:20080254-20080516	GM12878	blood:	n/a	n/a
20	TBP	chr3:20080199-20081814	K562	blood:	n/a	n/a
21	POLR2A	chr3:20080020-20081793	PBDE	blood:	n/a	n/a
22	TBL1XR1	chr3:20080114-20081653	K562	blood:	n/a	n/a
23	MAFF	chr3:20080147-20080885	K562	blood:	n/a	n/a
24	RAD21	chr3:20079083-20081084	SK-N-SH	brain:	n/a	n/a
25	MYC	chr3:20080063-20083450	K562	blood:	n/a	chr3:20080865-20080872 chr3:20081324-20081334 chr3:20081371-20081381 chr3:20083104-20083114
26	GATA2	chr3:20080106-20080543	HUVEC	blood vessel:	n/a	chr3:20080312-20080328 chr3:20080314-20080326 chr3:20080314-20080328
27	MAFK	chr3:20080133-20080743	K562	blood:	n/a	n/a
28	BHLHE40	chr3:20080055-20080701	K562	blood:	n/a	n/a
29	JUND	chr3:20080124-20081796	K562	blood:	n/a	chr3:20081360-20081369
30	GATA3	chr3:20080083-20080473	T-47D	breast:	n/a	chr3:20080312-20080328 chr3:20080314-20080326
31	CCNT2	chr3:20080191-20080451	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr3:20079279..20082964-chr3:20226299..20229620,6	K562	blood:
2	chr3:20079527..20082964-chr3:20226742..20229620,4	K562	blood:
3	chr3:20079693..20081472-chr3:20203928..20206383,2	K562	blood:
4	chr3:19986985..19992254-chr3:20079680..20083856,14	K562	blood:
5	chr3:19988765..19989271-chr3:20079780..20080698,2	NB4	blood:
6	chr3:19986921..19992254-chr3:20078952..20084327,16	K562	blood:
7	chr3:19979101..19981901-chr3:20077826..20080437,2	K562	blood:

Variant related genes	Relation type
KAT2B	TF binding region
ENSG00000163576	Chromatin interaction
ENSG00000144566	Chromatin interaction
ENSG00000129810	Chromatin interaction

Extended variants
information (count: 11 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1825914	chr3:19549859-20137270	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	esv1833006	chr3:19562271-20389045	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
3	esv1833139	chr3:19579860-20121349	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
4	nsv1010613	chr3:19942032-20461486	Weak transcription Active TSS Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
5	esv1826030	chr3:19972766-20170581	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
6	esv1825988	chr3:19976375-20102773	Flanking Active TSS Weak transcription Bivalent/Poised TSS Strong transcription Enhancers Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
7	esv1826830	chr3:19982972-20632072	Active TSS Genic enhancers Flanking Active TSS Bivalent/Poised TSS Weak transcription Strong transcription Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
8	nsv997486	chr3:20006702-20113989	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
9	esv1829542	chr3:20009231-20384627	Enhancers Active TSS Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
10	nsv834627	chr3:20068115-20227975	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
11	esv3396791	chr3:20080148-20083246	Flanking Active TSS Bivalent Enhancer Active TSS Enhancers Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:90 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:20078800-20080400	Enhancers	Primary T helper cells fromperipheralblood	blood
2	chr3:20079200-20080400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
3	chr3:20079400-20080400	Enhancers	Primary T regulatory cells fromperipheralblood	blood
4	chr3:20079400-20080400	Enhancers	Primary T killer memory cells from peripheral blood	blood
5	chr3:20079400-20080400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
6	chr3:20079400-20080400	Enhancers	Psoas Muscle	Psoas
7	chr3:20079400-20080600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr3:20079400-20081000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
9	chr3:20079600-20080400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
10	chr3:20079600-20080400	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
11	chr3:20079600-20080400	Enhancers	Brain Anterior Caudate	brain
12	chr3:20079600-20080400	Enhancers	Fetal Intestine Large	intestine
13	chr3:20079600-20080400	Enhancers	Fetal Intestine Small	intestine
14	chr3:20079600-20080800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr3:20080000-20080400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr3:20080000-20080400	Enhancers	Primary monocytes fromperipheralblood	blood
17	chr3:20080000-20080400	Enhancers	Primary T cells from cord blood	blood
18	chr3:20080000-20080400	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
19	chr3:20080000-20080400	Flanking Active TSS	Fetal Kidney	kidney
20	chr3:20080000-20080400	Enhancers	Fetal Thymus	thymus
21	chr3:20080000-20080400	Enhancers	Right Atrium	heart
22	chr3:20080000-20080600	Flanking Active TSS	Brain Substantia Nigra	brain
23	chr3:20080000-20080800	Bivalent Enhancer	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
24	chr3:20080000-20080800	Bivalent Enhancer	iPS-15b Cell Line	embryonic stem cell
25	chr3:20080000-20080800	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
26	chr3:20080000-20080800	Flanking Active TSS	Primary T helper 17 cells PMA-I stimulated	--
27	chr3:20080000-20080800	Flanking Active TSS	Adipose Nuclei	Adipose
28	chr3:20080000-20081000	Flanking Active TSS	Primary hematopoietic stem cells	blood
29	chr3:20080000-20081000	Flanking Active TSS	Primary T helper memory cells from peripheral blood 1	blood
30	chr3:20080000-20081000	Flanking Active TSS	HUVEC	blood vessel
31	chr3:20080000-20081000	Flanking Active TSS	K562	blood
32	chr3:20080000-20081200	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
33	chr3:20080000-20083200	Active TSS	Aorta	Aorta
34	chr3:20080200-20080400	Bivalent Enhancer	H1 Cell Line	embryonic stem cell
35	chr3:20080200-20080400	Bivalent Enhancer	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
36	chr3:20080200-20080400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr3:20080200-20080400	Flanking Bivalent TSS/Enh	HUES64 Cell Line	embryonic stem cell
38	chr3:20080200-20080400	Enhancers	Primary neutrophils fromperipheralblood	blood
39	chr3:20080200-20080400	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
40	chr3:20080200-20080400	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
41	chr3:20080200-20080400	Enhancers	Brain Angular Gyrus	brain
42	chr3:20080200-20080400	Flanking Active TSS	Duodenum Smooth Muscle	Duodenum
43	chr3:20080200-20080400	Flanking Active TSS	Pancreatic Islets	Pancreatic Islet
44	chr3:20080200-20080400	Enhancers	Fetal Muscle Leg	muscle
45	chr3:20080200-20080400	Enhancers	Gastric	stomach
46	chr3:20080200-20080400	Enhancers	Pancreas	Pancrea
47	chr3:20080200-20080400	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
48	chr3:20080200-20080400	Flanking Active TSS	Rectal Smooth Muscle	rectum
49	chr3:20080200-20080400	Enhancers	Sigmoid Colon	Sigmoid Colon
50	chr3:20080200-20080400	Enhancers	Hela-S3	cervix

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