Variant report

Variant	rs377289876
Chromosome Location	chr1:59248085-59248086
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:278)
CpG islands
(count:0)
Chromatin interactive
region (count:58)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:278 , 50 per page) page: 1 2 3 4 5 6

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	PML	chr1:59248041-59248585	GM12878	blood:	n/a	n/a
2	RAD21	chr1:59247301-59248512	H1-hESC	embryonic stem cell:	n/a	n/a
3	POLR2A	chr1:59244106-59251818	U87	brain:	n/a	n/a
4	POLR2A	chr1:59245147-59251676	Hela-S3	cervix:	n/a	n/a
5	SIN3AK20	chr1:59247212-59248438	MCF-7	breast:	n/a	n/a
6	MAX	chr1:59247473-59251323	GM12878	blood:	n/a	chr1:59249843-59249852
7	CTCF	chr1:59248085-59248271	A549	lung:	n/a	n/a
8	POLR2A	chr1:59247151-59251494	GM12892	blood:	n/a	n/a
9	SIN3AK20	chr1:59247248-59248101	SK-N-SH	brain:	n/a	n/a
10	YY1	chr1:59247958-59248344	HepG2	liver:	n/a	n/a
11	POLR2A	chr1:59247903-59249799	H1-hESC	embryonic stem cell:	n/a	n/a
12	MAZ	chr1:59247826-59248233	GM12878	blood:	n/a	n/a
13	USF2	chr1:59247379-59248269	GM12878	blood:	n/a	n/a
14	EP300	chr1:59247906-59248087	HepG2	liver:	n/a	n/a
15	POLR2A	chr1:59247671-59250698	H1-hESC	embryonic stem cell:	n/a	n/a
16	POLR2A	chr1:59243934-59251872	U87	brain:	n/a	n/a
17	CHD1	chr1:59244118-59252745	IMR90	lung:	n/a	chr1:59250203-59250213
18	POLR2A	chr1:59247234-59250280	H1-hESC	embryonic stem cell:	n/a	n/a
19	HEY1	chr1:59246437-59251188	K562	blood:	n/a	chr1:59250260-59250275 chr1:59249195-59249210
20	RAD21	chr1:59248011-59248365	GM12878	blood:	n/a	n/a
21	POLR2A	chr1:59244614-59251725	HUVEC	blood vessel:	n/a	n/a
22	E2F6	chr1:59247798-59248635	K562	blood:	n/a	chr1:59248144-59248155 chr1:59248574-59248586
23	POLR2A	chr1:59247171-59251601	H1-hESC	embryonic stem cell:	n/a	n/a
24	CTCF	chr1:59248080-59248230	NHEK	skin:	n/a	n/a
25	RAD21	chr1:59248035-59248289	K562	blood:	n/a	n/a
26	POLR2A	chr1:59247385-59248444	PFSK-1	brain:	n/a	n/a
27	CTCF	chr1:59248025-59248299	GM10266	blood:	n/a	n/a
28	MAX	chr1:59247767-59248610	MCF-7	breast:	n/a	n/a
29	E2F6	chr1:59248033-59248453	K562	blood:	n/a	chr1:59248144-59248155
30	POLR2A	chr1:59247074-59248139	HUVEC	blood vessel:	n/a	n/a
31	ZKSCAN1	chr1:59247347-59250548	Hela-S3	cervix:	n/a	n/a
32	MAX	chr1:59247373-59250292	H1-hESC	embryonic stem cell:	n/a	chr1:59249843-59249852
33	CHD2	chr1:59247295-59248282	Hela-S3	cervix:	n/a	n/a
34	CTCF	chr1:59247980-59248130	AG04450	lung:	n/a	n/a
35	CHD2	chr1:59247403-59248352	GM12878	blood:	n/a	n/a
36	RAD21	chr1:59247948-59248329	HepG2	liver:	n/a	n/a
37	CTCF	chr1:59248053-59248307	HepG2	liver:	n/a	n/a
38	SPI1	chr1:59247821-59248137	GM12891	blood:	n/a	n/a
39	POLR2A	chr1:59247146-59251217	HepG2	liver:	n/a	n/a
40	POLR2A	chr1:59247394-59248094	MCF-7	breast:	n/a	n/a
41	TCF12	chr1:59247888-59248272	GM12878	blood:	n/a	n/a
42	POLR2A	chr1:59244523-59251294	SK-N-SH	brain:	n/a	n/a
43	MYBL2	chr1:59247814-59248323	HepG2	liver:	n/a	n/a
44	CTCF	chr1:59248023-59248346	GM19239	blood:	n/a	n/a
45	HEY1	chr1:59247490-59248096	HepG2	liver:	n/a	n/a
46	POLR2A	chr1:59245241-59249887	K562	blood:	n/a	n/a
47	CTCF	chr1:59247382-59248359	K562	blood:	n/a	n/a
48	CTCF	chr1:59248060-59248210	BJ	skin:	n/a	n/a
49	MXI1	chr1:59247831-59248216	Hela-S3	cervix:	n/a	n/a
50	RAD21	chr1:59247924-59248445	A549	lung:	n/a	n/a

No data

(count:58 , 50 per page) page: 1 2

No.	Distal block	Cell Line	Cell type
1	chr1:59246774..59249251-chr1:59451300..59453191,2	K562	blood:
2	chr1:59245185..59249625-chr1:59318506..59322949,5	K562	blood:
3	chr1:59245650..59249709-chr1:60164316..60166597,3	MCF-7	breast:
4	chr1:52830101..52832396-chr1:59247801..59250793,2	K562	blood:
5	chr1:59245489..59255081-chr1:59277954..59283925,49	MCF-7	breast:
6	chr1:59248070..59249752-chr1:59509015..59510889,2	K562	blood:
7	chr1:59247150..59249652-chr1:59355694..59357549,2	MCF-7	breast:
8	chr1:59246163..59248652-chr1:59466870..59469148,2	K562	blood:
9	chr1:59247291..59249563-chr1:59804823..59806731,2	K562	blood:
10	chr1:59246529..59249235-chr1:59474703..59476422,2	K562	blood:
11	chr1:59245578..59252912-chr1:59759683..59766457,13	MCF-7	breast:
12	chr1:59246264..59248102-chr1:149855755..149857816,2	MCF-7	breast:
13	chr1:59242448..59251438-chr1:59358057..59375559,39	K562	blood:
14	chr1:59245136..59249509-chr1:59544104..59550391,6	K562	blood:
15	chr1:59246525..59249398-chr1:60121634..60124612,2	K562	blood:
16	chr1:59245974..59248964-chr1:60182800..60185774,2	MCF-7	breast:
17	chr1:59248023..59251652-chr1:59759822..59764138,5	MCF-7	breast:
18	chr1:59247984..59249689-chr1:59605689..59608661,2	MCF-7	breast:
19	chr1:59246648..59248452-chr1:59606800..59609133,2	K562	blood:
20	chr1:59246838..59249667-chr1:59504276..59507925,4	K562	blood:
21	chr1:59245887..59249534-chr1:59455949..59458682,3	K562	blood:
22	chr1:59244053..59249750-chr1:59393075..59399809,12	K562	blood:
23	chr1:59247660..59249261-chr1:59326768..59328328,2	K562	blood:
24	chr1:59246435..59249254-chr1:59487144..59489692,2	MCF-7	breast:
25	chr1:59203533..59207535-chr1:59246122..59248670,4	K562	blood:
26	chr1:59247110..59249752-chr1:59387312..59390458,3	K562	blood:
27	chr1:59246122..59248225-chr1:60208395..60212049,3	K562	blood:
28	chr1:59245718..59248161-chr1:59323277..59324885,2	MCF-7	breast:
29	chr1:59163564..59170812-chr1:59245390..59251956,13	K562	blood:
30	chr1:59245933..59248490-chr1:59559542..59562151,2	K562	blood:
31	chr1:59246671..59249127-chr1:59295559..59298699,3	K562	blood:
32	chr1:59245570..59248484-chr1:61782798..61784305,2	K562	blood:
33	chr1:59244876..59251429-chr1:59540803..59548111,10	K562	blood:
34	chr1:59245275..59248106-chr1:59562308..59564391,2	K562	blood:
35	chr1:59247175..59249150-chr1:59885978..59888095,2	K562	blood:
36	chr1:59243458..59255133-chr1:59272031..59283720,29	K562	blood:
37	chr1:59176336..59177899-chr1:59247629..59249270,2	K562	blood:
38	chr1:59246945..59249154-chr1:59305966..59308006,2	K562	blood:
39	chr1:59229058..59237226-chr1:59244356..59250672,11	MCF-7	breast:
40	chr1:59245007..59249031-chr1:59898130..59900045,3	MCF-7	breast:
41	chr1:59162606..59168890-chr1:59243728..59252069,16	K562	blood:
42	chr1:59245349..59248652-chr1:59463306..59469148,5	K562	blood:
43	chr1:59010838..59012578-chr1:59247144..59249684,2	K562	blood:
44	chr1:59246576..59248497-chr1:59492481..59494688,2	K562	blood:
45	chr1:59247050..59248597-chr1:59321085..59323549,2	K562	blood:
46	chr1:59247110..59248672-chr1:59523217..59525138,2	MCF-7	breast:
47	chr1:59246188..59248443-chr1:59459384..59461421,2	K562	blood:
48	chr1:59247035..59249570-chr1:59509015..59511217,2	K562	blood:
49	chr1:59244308..59248659-chr1:59395754..59399809,6	K562	blood:
50	chr1:59196730..59199311-chr1:59246080..59248881,2	K562	blood:

No data

Variant related genes	Relation type
LINC01135	TF binding region
ENSG00000162600	Chromatin interaction
ENSG00000264081	Chromatin interaction
ENSG00000172456	Chromatin interaction
ENSG00000232453	Chromatin interaction
ENSG00000173406	Chromatin interaction
ENSG00000272226	Chromatin interaction
ENSG00000235215	Chromatin interaction
ENSG00000154222	Chromatin interaction
ENSG00000162601	Chromatin interaction
ENSG00000228121	Chromatin interaction

Extended variants
information (count: 8 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1798968	chr1:59246581-59251097	Flanking Active TSS Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Weak transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
2	esv1799803	chr1:59246581-59251097	Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Enhancers Transcr. at gene 5' and 3' Weak transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
3	esv12569	chr1:59247251-59250394	Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region	52 gene(s)	inside rSNPs	diseases
4	esv1800016	chr1:59247993-59250312	Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	48 gene(s)	inside rSNPs	diseases
5	esv1801003	chr1:59247993-59250312	Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Weak transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	48 gene(s)	inside rSNPs	diseases
6	esv1801034	chr1:59247993-59250312	Bivalent/Poised TSS Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Weak transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	48 gene(s)	inside rSNPs	diseases
7	esv1802607	chr1:59247993-59250312	Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription	TF binding region CpG island Chromatin interactive region	48 gene(s)	inside rSNPs	diseases
8	esv1802992	chr1:59247993-59251097	Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Weak transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	49 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	chr1:59245200-59251400	Active TSS	Aorta	Aorta
2	chr1:59245600-59250600	Active TSS	HMEC	breast
3	chr1:59245600-59251000	Active TSS	HSMMtube	muscle
4	chr1:59245600-59251400	Active TSS	Psoas Muscle	Psoas
5	chr1:59245800-59248400	Transcr. at gene 5' and 3'	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr1:59245800-59248400	Transcr. at gene 5' and 3'	Breast Myoepithelial Primary Cells	Breast
7	chr1:59245800-59248800	Transcr. at gene 5' and 3'	NHDF-Ad	bronchial
8	chr1:59246000-59248400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
9	chr1:59246000-59251200	Active TSS	Liver	Liver
10	chr1:59246200-59248800	Transcr. at gene 5' and 3'	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr1:59246200-59251600	Active TSS	Fetal Kidney	kidney
12	chr1:59246400-59248600	Transcr. at gene 5' and 3'	Osteobl	bone
13	chr1:59246400-59251400	Active TSS	ES-I3 Cell Line	embryonic stem cell
14	chr1:59246600-59248200	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
15	chr1:59246600-59248400	Transcr. at gene 5' and 3'	Placenta Amnion	Placenta Amnion
16	chr1:59246600-59248400	Active TSS	GM12878-XiMat	blood
17	chr1:59246600-59249000	Transcr. at gene 5' and 3'	Muscle Satellite Cultured Cells	--
18	chr1:59246600-59251200	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
19	chr1:59246600-59251200	Active TSS	A549	lung
20	chr1:59246600-59251400	Active TSS	Ovary	ovary
21	chr1:59246800-59248800	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr1:59246800-59248800	Transcr. at gene 5' and 3'	Rectal Mucosa Donor 31	rectum
23	chr1:59246800-59249400	Transcr. at gene 5' and 3'	Skeletal Muscle Male	skeletal muscle
24	chr1:59246800-59249600	Transcr. at gene 5' and 3'	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr1:59246800-59251000	Active TSS	HSMM	muscle
26	chr1:59246800-59251200	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
27	chr1:59246800-59251400	Active TSS	Colon Smooth Muscle	Colon
28	chr1:59246800-59252000	Active TSS	Duodenum Smooth Muscle	Duodenum
29	chr1:59247000-59248200	Transcr. at gene 5' and 3'	H9 Derived Neuron Cultured Cells	ES cell derived
30	chr1:59247000-59248400	Active TSS	Cortex derived primary cultured neurospheres	brain
31	chr1:59247000-59248800	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
32	chr1:59247000-59248800	Transcr. at gene 5' and 3'	NHEK	skin
33	chr1:59247000-59249000	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
34	chr1:59247000-59249000	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell
35	chr1:59247000-59249000	Flanking Active TSS	Primary B cells from cord blood	blood
36	chr1:59247000-59249200	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
37	chr1:59247000-59249400	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
38	chr1:59247000-59251200	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
39	chr1:59247000-59251200	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
40	chr1:59247000-59251200	Active TSS	Brain Angular Gyrus	brain
41	chr1:59247000-59251200	Active TSS	Brain Anterior Caudate	brain
42	chr1:59247000-59251200	Active TSS	Brain Hippocampus Middle	brain
43	chr1:59247000-59251200	Active TSS	Brain Inferior Temporal Lobe	brain
44	chr1:59247000-59251200	Active TSS	Fetal Heart	heart
45	chr1:59247000-59251200	Active TSS	Rectal Mucosa Donor 29	rectum
46	chr1:59247000-59251400	Active TSS	Brain Substantia Nigra	brain
47	chr1:59247200-59248200	Flanking Bivalent TSS/Enh	Primary monocytes fromperipheralblood	blood
48	chr1:59247200-59248800	Transcr. at gene 5' and 3'	IMR90 fetal lung fibroblasts Cell Line	lung
49	chr1:59247200-59248800	Flanking Active TSS	Primary Natural Killer cells fromperipheralblood	blood
50	chr1:59247200-59249000	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell

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