Variant report

Variant	rs543934498
Chromosome Location	chr18:12885821-12885822
allele	-/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	TBP	chr18:12885257-12885999	GM12878	blood:	n/a	n/a
2	MXI1	chr18:12882814-12886050	GM12878	blood:	n/a	n/a
3	POLR2A	chr18:12882559-12886033	GM12891	blood:	n/a	n/a
4	POLR2A	chr18:12882859-12886028	GM12878	blood:	n/a	n/a
5	POLR2A	chr18:12884378-12886072	GM12878	blood:	n/a	n/a
6	POLR2A	chr18:12882686-12886052	GM12878	blood:	n/a	n/a
7	EBF1	chr18:12883735-12886127	GM12878	blood:	n/a	chr18:12884550-12884560 chr18:12885778-12885789 chr18:12885801-12885812
8	ATF2	chr18:12885496-12885957	GM12878	blood:	n/a	n/a
9	POLR2A	chr18:12885288-12885846	H1-hESC	embryonic stem cell:	n/a	n/a
10	NANOG	chr18:12885496-12885881	H1-hESC	embryonic stem cell:	n/a	n/a
11	ZNF143	chr18:12885612-12885885	GM12878	blood:	n/a	chr18:12885621-12885630
12	POU2F2	chr18:12885471-12885882	GM12891	blood:	n/a	chr18:12885626-12885639
13	RUNX3	chr18:12885447-12885913	GM12878	blood:	n/a	n/a
14	POU2F2	chr18:12885450-12885929	GM12878	blood:	n/a	chr18:12885626-12885639
15	STAT1	chr18:12885687-12885834	GM12878	blood:	n/a	n/a
16	RCOR1	chr18:12885378-12885997	GM12878	blood:	n/a	n/a
17	POU5F1	chr18:12885465-12886009	H1-hESC	embryonic stem cell:	n/a	chr18:12885626-12885639
18	MTA3	chr18:12885378-12886006	GM12878	blood:	n/a	n/a
19	POLR2A	chr18:12885349-12885917	GM12892	blood:	n/a	n/a
20	ATF2	chr18:12885468-12886010	GM12878	blood:	n/a	n/a
21	BHLHE40	chr18:12885061-12885968	GM12878	blood:	n/a	n/a
22	JUND	chr18:12885522-12885901	H1-hESC	embryonic stem cell:	n/a	n/a
23	IRF1	chr18:12885439-12885823	K562	blood:	n/a	n/a
24	EP300	chr18:12885322-12885944	GM12878	blood:	n/a	n/a
25	WRNIP1	chr18:12885412-12885969	GM12878	blood:	n/a	n/a
26	CUX1	chr18:12885588-12885997	GM12878	blood:	n/a	n/a
27	POLR2A	chr18:12885366-12885857	GM12878	blood:	n/a	n/a
28	RCOR1	chr18:12885368-12885840	K562	blood:	n/a	n/a
29	POLR2A	chr18:12885809-12885867	HepG2	liver:	n/a	n/a
30	MAZ	chr18:12885581-12886158	GM12878	blood:	n/a	n/a
31	EBF1	chr18:12885526-12886008	GM12878	blood:	n/a	chr18:12885778-12885789 chr18:12885801-12885812
32	BCL11A	chr18:12885586-12885970	GM12878	blood:	n/a	chr18:12885621-12885629
33	POU2F2	chr18:12885307-12886057	GM12878	blood:	n/a	chr18:12885626-12885639
34	EBF1	chr18:12885472-12886051	GM12878	blood:	n/a	chr18:12885778-12885789 chr18:12885801-12885812
35	TCF12	chr18:12885570-12885909	GM12878	blood:	n/a	n/a
36	POLR2A	chr18:12882565-12885987	GM12878	blood:	n/a	n/a
37	EP300	chr18:12885415-12885930	GM12878	blood:	n/a	n/a
38	RUNX3	chr18:12885534-12885983	GM12878	blood:	n/a	n/a
39	CHD2	chr18:12885500-12885944	GM12878	blood:	n/a	n/a
40	SP1	chr18:12885367-12885881	H1-hESC	embryonic stem cell:	n/a	n/a
41	POLR2A	chr18:12885088-12885934	GM12878	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr18:12774117..12776643-chr18:12883699..12885836,3	K562	blood:
2	chr18:12885210..12887915-chr18:12922240..12924261,2	K562	blood:
3	chr18:12884698..12887915-chr18:12921814..12925737,3	K562	blood:

Variant related genes	Relation type
PTPN2	TF binding region
ENSG00000260302	Chromatin interaction

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	nsv1063125	chr18:12046892-12918251	Weak transcription Strong transcription Flanking Bivalent TSS/Enh Active TSS Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	130 gene(s)	inside rSNPs	diseases
2	nsv1062014	chr18:12687210-13183383	Enhancers Active TSS Weak transcription Genic enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	101 gene(s)	inside rSNPs	diseases
3	nsv543655	chr18:12687210-13183383	Flanking Bivalent TSS/Enh Strong transcription Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	101 gene(s)	inside rSNPs	diseases
4	nsv1064844	chr18:12748045-12953235	Flanking Active TSS Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	68 gene(s)	inside rSNPs	diseases
5	nsv543656	chr18:12748045-12953235	Weak transcription Active TSS Flanking Active TSS Enhancers Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	68 gene(s)	inside rSNPs	diseases
6	nsv909407	chr18:12877060-12917703	Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	45 gene(s)	inside rSNPs	n/a
7	nsv132152	chr18:12885273-12890021	Active TSS Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:41 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:12884800-12886000	Enhancers	Small Intestine	intestine
2	chr18:12884800-12886400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr18:12885000-12886000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
4	chr18:12885000-12886000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
5	chr18:12885000-12886000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
6	chr18:12885000-12886000	Flanking Active TSS	GM12878-XiMat	blood
7	chr18:12885000-12886600	Enhancers	Primary T helper cells fromperipheralblood	blood
8	chr18:12885000-12886800	Enhancers	Primary monocytes fromperipheralblood	blood
9	chr18:12885000-12887000	Enhancers	H1 Cell Line	embryonic stem cell
10	chr18:12885000-12887400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr18:12885000-12888600	Weak transcription	Fetal Stomach	stomach
12	chr18:12885200-12886000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
13	chr18:12885200-12886400	Enhancers	ES-I3 Cell Line	embryonic stem cell
14	chr18:12885200-12886400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
15	chr18:12885200-12886600	Enhancers	H9 Cell Line	embryonic stem cell
16	chr18:12885200-12886600	Weak transcription	Gastric	stomach
17	chr18:12885200-12886800	Enhancers	Monocytes-CD14+_RO01746	blood
18	chr18:12885200-12887400	Enhancers	Primary B cells from peripheral blood	blood
19	chr18:12885200-12887400	Weak transcription	Rectal Smooth Muscle	rectum
20	chr18:12885200-12889800	Weak transcription	HSMM	muscle
21	chr18:12885200-12890600	Weak transcription	Placenta	Placenta
22	chr18:12885200-12893000	Weak transcription	Fetal Lung	lung
23	chr18:12885400-12886200	Enhancers	Thymus	Thymus
24	chr18:12885400-12886200	Enhancers	NHEK	skin
25	chr18:12885400-12886600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
26	chr18:12885400-12886800	Enhancers	Primary B cells from cord blood	blood
27	chr18:12885400-12887000	Enhancers	Primary T helper cells PMA-I stimulated	--
28	chr18:12885400-12889600	Weak transcription	Hela-S3	cervix
29	chr18:12885600-12886000	Enhancers	iPS-18 Cell Line	embryonic stem cell
30	chr18:12885600-12886000	Enhancers	Psoas Muscle	Psoas
31	chr18:12885600-12886600	Enhancers	K562	blood
32	chr18:12885600-12887200	Enhancers	Fetal Thymus	thymus
33	chr18:12885600-12893600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
34	chr18:12885800-12886000	Flanking Active TSS	iPS-15b Cell Line	embryonic stem cell
35	chr18:12885800-12886000	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
36	chr18:12885800-12886200	Weak transcription	HepG2	liver
37	chr18:12885800-12886400	Weak transcription	HUES6 Cell Line	embryonic stem cell
38	chr18:12885800-12886600	Enhancers	HUES48 Cell Line	embryonic stem cell
39	chr18:12885800-12886600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
40	chr18:12885800-12890200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
41	chr18:12885800-12890600	Weak transcription	Stomach Mucosa	stomach

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