Variant report

Variant	rs528828960
Chromosome Location	chr12:49412316-49412317
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:405)
CpG islands
(count:0)
Chromatin interactive
region (count:40)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:405 , 50 per page) page: 1 2 3 4 5 6 7 ... 9

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr12:49411737-49413103	Raji	blood:	n/a	n/a
2	YY1	chr12:49412266-49412833	K562	blood:	n/a	n/a
3	IRF1	chr12:49412304-49413119	K562	blood:	n/a	n/a
4	EP300	chr12:49412307-49413066	A549	lung:	n/a	n/a
5	HEY1	chr12:49411980-49412948	K562	blood:	n/a	n/a
6	ELF1	chr12:49412303-49412812	A549	lung:	n/a	n/a
7	YY1	chr12:49412174-49413041	ECC-1	luminal epithelium:	n/a	n/a
8	POLR2A	chr12:49412308-49412998	HepG2	liver:	n/a	n/a
9	TBL1XR1	chr12:49411819-49412957	K562	blood:	n/a	n/a
10	GABPA	chr12:49411937-49413076	MCF-7	breast:	n/a	n/a
11	YY1	chr12:49412277-49412655	K562	blood:	n/a	n/a
12	CREB1	chr12:49411906-49413153	HepG2	liver:	n/a	n/a
13	TAF1	chr12:49411995-49412948	MCF-7	breast:	n/a	n/a
14	GABPA	chr12:49412218-49412892	Hela-S3	cervix:	n/a	n/a
15	CTCF	chr12:49412304-49412647	GM12892	blood:	n/a	n/a
16	POLR2A	chr12:49412110-49413113	SK-N-MC	brain:	n/a	n/a
17	RAD21	chr12:49412312-49412636	H1-hESC	embryonic stem cell:	n/a	n/a
18	POLR2A	chr12:49411891-49413127	H1-hESC	embryonic stem cell:	n/a	n/a
19	ZMIZ1	chr12:49412258-49412878	K562	blood:	n/a	n/a
20	YY1	chr12:49412106-49412851	A549	lung:	n/a	n/a
21	MAZ	chr12:49412292-49413514	K562	blood:	n/a	n/a
22	MAX	chr12:49412230-49413075	MCF-7	breast:	n/a	n/a
23	MAX	chr12:49411634-49413032	ECC-1	luminal epithelium:	n/a	n/a
24	POLR2A	chr12:49411681-49413024	Hela-S3	cervix:	n/a	n/a
25	REST	chr12:49411786-49413051	A549	lung:	n/a	n/a
26	TAF1	chr12:49412295-49412812	GM12892	blood:	n/a	n/a
27	PAX5	chr12:49412236-49412703	GM12878	blood:	n/a	n/a
28	TAF1	chr12:49412211-49412796	SK-N-SH	brain:	n/a	n/a
29	USF2	chr12:49412139-49412969	GM12878	blood:	n/a	n/a
30	POLR2A	chr12:49411457-49413584	HUVEC	blood vessel:	n/a	n/a
31	RCOR1	chr12:49411916-49412976	K562	blood:	n/a	n/a
32	REST	chr12:49412237-49412786	PFSK-1	brain:	n/a	n/a
33	RUNX3	chr12:49412243-49413063	GM12878	blood:	n/a	n/a
34	POLR2A	chr12:49411738-49413078	GM15510	blood:	n/a	n/a
35	TBP	chr12:49412313-49412993	GM12878	blood:	n/a	n/a
36	SIN3AK20	chr12:49412184-49412797	PFSK-1	brain:	n/a	n/a
37	E2F6	chr12:49412060-49413150	A549	lung:	n/a	n/a
38	TAF1	chr12:49412287-49412819	GM12892	blood:	n/a	n/a
39	ZBTB33	chr12:49412249-49412850	SK-N-SH	brain:	n/a	n/a
40	POLR2A	chr12:49411538-49413120	K562	blood:	n/a	n/a
41	CTCF	chr12:49412237-49412638	GM12891	blood:	n/a	n/a
42	HCFC1	chr12:49411403-49413692	Hela-S3	cervix:	n/a	n/a
43	GABPA	chr12:49412140-49412931	K562	blood:	n/a	n/a
44	POLR2A	chr12:49412303-49412848	HepG2	liver:	n/a	n/a
45	POLR2A	chr12:49411762-49412984	GM18951	blood:	n/a	n/a
46	HA-E2F1	chr12:49412205-49412921	MCF-7	breast:	n/a	n/a
47	CTCF	chr12:49412254-49412816	MCF-7	breast:	n/a	n/a
48	CREB1	chr12:49412266-49412941	ECC-1	luminal epithelium:	n/a	n/a
49	MXI1	chr12:49411927-49412940	HepG2	liver:	n/a	n/a
50	POLR2A	chr12:49411722-49413042	ProgFib	skin:	n/a	n/a

No data

(count:40 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr12:49411250..49414905-chr12:49447359..49450802,6	MCF-7	breast:
2	chr12:49412133..49412956-chr20:47894836..47895476,2	Hela-S3	cervix:
3	chr12:49412124..49413026-chr5:32174262..32174852,2	Hela-S3	cervix:
4	chr12:49408415..49414757-chr12:49522619..49525582,9	MCF-7	breast:
5	chr12:49410741..49414968-chr12:49656213..49660641,6	K562	blood:
6	chr12:49408338..49419708-chr12:49447252..49460551,38	K562	blood:
7	chr12:49348804..49352502-chr12:49411258..49414497,4	MCF-7	breast:
8	chr12:49412238..49414069-chr12:49657738..49659294,2	MCF-7	breast:
9	chr12:49410223..49412627-chr12:49436290..49440145,3	K562	blood:
10	chr12:49349202..49351999-chr12:49410599..49414055,4	MCF-7	breast:
11	chr12:49368203..49373775-chr12:49410781..49415457,6	K562	blood:
12	chr12:49388402..49390811-chr12:49410964..49413711,2	MCF-7	breast:
13	chr12:49207853..49210267-chr12:49412242..49414195,2	K562	blood:
14	chr12:49244558..49246896-chr12:49411138..49413434,2	MCF-7	breast:
15	chr12:49412095..49412628-chr16:69373590..69374336,2	Hela-S3	cervix:
16	chr12:49395494..49398134-chr12:49410084..49412345,2	MCF-7	breast:
17	chr12:49349516..49351260-chr12:49410887..49413470,2	K562	blood:
18	chr12:49411707..49412634-chr20:30193037..30193936,2	Hela-S3	cervix:
19	chr12:49412316..49413094-chr19:3606438..3606974,2	Hela-S3	cervix:
20	chr12:49410733..49415536-chr12:49523564..49526910,8	K562	blood:
21	chr12:49412176..49413113-chr15:75746855..75747416,2	Hela-S3	cervix:
22	chr1:245027593..245028235-chr12:49411958..49412623,2	Hela-S3	cervix:
23	chr12:49410579..49413468-chr12:49666098..49668038,2	K562	blood:
24	chr12:49369680..49374710-chr12:49411684..49416052,5	K562	blood:
25	chr12:49411035..49414032-chr12:49431081..49434275,3	K562	blood:
26	chr12:49109260..49113049-chr12:49411417..49414170,4	K562	blood:
27	chr12:49409658..49414587-chr12:49499656..49504173,4	K562	blood:
28	chr12:49409714..49416851-chr12:49447402..49455499,24	MCF-7	breast:
29	chr12:49407466..49416688-chr12:49451532..49456163,12	MCF-7	breast:
30	chr12:49412260..49412838-chr12:93835928..93836641,2	Hela-S3	cervix:
31	chr12:49411929..49413687-chr17:57923911..57925440,2	MCF-7	breast:
32	chr12:49349745..49351260-chr12:49410630..49412387,2	K562	blood:
33	chr12:49411020..49415552-chr12:49523211..49527183,13	K562	blood:
34	chr12:49410141..49415550-chr12:49657481..49661686,9	K562	blood:
35	chr12:49209305..49214344-chr12:49410836..49414443,6	MCF-7	breast:
36	chr1:153642654..153643615-chr12:49411973..49412608,2	Hela-S3	cervix:
37	chr12:49410463..49414527-chr12:49462417..49465664,5	K562	blood:
38	chr12:49412091..49412681-chr16:75498282..75498826,2	Hela-S3	cervix:
39	chr12:49409906..49413174-chr12:49495482..49498237,3	K562	blood:
40	chr12:49412128..49415221-chr12:49522907..49525212,5	MCF-7	breast:

No data

Variant related genes	Relation type
PRKAG1	TF binding region
ENSG00000139636	Chromatin interaction
ENSG00000166822	Chromatin interaction
ENSG00000124201	Chromatin interaction
ENSG00000167553	Chromatin interaction
ENSG00000123416	Chromatin interaction
ENSG00000258232	Chromatin interaction
ENSG00000113384	Chromatin interaction
ENSG00000153187	Chromatin interaction
ENSG00000258101	Chromatin interaction
ENSG00000177889	Chromatin interaction
ENSG00000134287	Chromatin interaction
ENSG00000167535	Chromatin interaction
ENSG00000169375	Chromatin interaction
ENSG00000129315	Chromatin interaction
ENSG00000261717	Chromatin interaction
ENSG00000167548	Chromatin interaction
ENSG00000174243	Chromatin interaction
ENSG00000177410	Chromatin interaction
ENSG00000272822	Chromatin interaction
ENSG00000125084	Chromatin interaction
ENSG00000201524	Chromatin interaction
ENSG00000125968	Chromatin interaction
ENSG00000258283	Chromatin interaction
ENSG00000143621	Chromatin interaction
ENSG00000132603	Chromatin interaction
ENSG00000167550	Chromatin interaction
ENSG00000273175	Chromatin interaction
ENSG00000200303	Chromatin interaction
ENSG00000272086	Chromatin interaction
ENSG00000258017	Chromatin interaction
ENSG00000006638	Chromatin interaction
ENSG00000200309	Chromatin interaction
ENSG00000181929	Chromatin interaction

Extended variants
information (count: 6 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832404	chr12:49258560-49458555	Weak transcription Bivalent/Poised TSS Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	87 gene(s)	inside rSNPs	diseases
2	nsv1051161	chr12:49314550-49828473	Flanking Bivalent TSS/Enh Weak transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Active TSS Strong transcription Enhancers Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	322 gene(s)	inside rSNPs	diseases
3	nsv541489	chr12:49314550-49828473	Flanking Active TSS Transcr. at gene 5' and 3' Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers Weak transcription Strong transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	322 gene(s)	inside rSNPs	diseases
4	nsv558833	chr12:49358880-49478812	Bivalent Enhancer Flanking Active TSS Enhancers Strong transcription Active TSS Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	69 gene(s)	inside rSNPs	diseases
5	nsv1036452	chr12:49376285-49867760	Weak transcription Flanking Active TSS Enhancers Genic enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	315 gene(s)	inside rSNPs	diseases
6	esv3387384	chr12:49412035-49416433	Enhancers Strong transcription Active TSS Flanking Active TSS Weak transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA target site	38 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	chr12:49411200-49412400	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
2	chr12:49411200-49413200	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr12:49411400-49412400	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr12:49411400-49412400	Flanking Active TSS	Primary hematopoietic stem cells	blood
5	chr12:49411400-49412400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
6	chr12:49411400-49412400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr12:49411400-49412400	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
8	chr12:49411400-49412400	Flanking Active TSS	Stomach Smooth Muscle	stomach
9	chr12:49411400-49412600	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
10	chr12:49411400-49412800	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr12:49411400-49413200	Active TSS	Fetal Muscle Trunk	muscle
12	chr12:49411400-49413200	Active TSS	Psoas Muscle	Psoas
13	chr12:49411400-49413200	Active TSS	NHLF	lung
14	chr12:49411400-49413600	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
15	chr12:49411600-49413000	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
16	chr12:49411600-49413000	Active TSS	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr12:49411600-49413000	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
18	chr12:49411600-49413000	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
19	chr12:49411600-49413000	Flanking Active TSS	Primary mononuclear cells fromperipheralblood	Blood
20	chr12:49411600-49413000	Active TSS	Aorta	Aorta
21	chr12:49411600-49413000	Active TSS	Esophagus	oesophagus
22	chr12:49411600-49413200	Active TSS	H9 Cell Line	embryonic stem cell
23	chr12:49411600-49413200	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
24	chr12:49411600-49413200	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
25	chr12:49411600-49413200	Active TSS	Left Ventricle	heart
26	chr12:49411800-49412600	Active TSS	Gastric	stomach
27	chr12:49411800-49412800	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr12:49411800-49412800	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr12:49411800-49412800	Active TSS	Brain Hippocampus Middle	brain
30	chr12:49411800-49412800	Active TSS	NH-A	brain
31	chr12:49411800-49412800	Active TSS	NHEK	skin
32	chr12:49411800-49412800	Active TSS	Osteobl	bone
33	chr12:49411800-49413000	Active TSS	Primary T killer memory cells from peripheral blood	blood
34	chr12:49411800-49413200	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
35	chr12:49411800-49413200	Active TSS	HUES6 Cell Line	embryonic stem cell
36	chr12:49411800-49413200	Active TSS	iPS-15b Cell Line	embryonic stem cell
37	chr12:49411800-49413200	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
38	chr12:49411800-49413200	Active TSS	Fetal Intestine Small	intestine
39	chr12:49411800-49413200	Active TSS	Pancreatic Islets	Pancreatic Islet
40	chr12:49411800-49413200	Active TSS	Ovary	ovary
41	chr12:49411800-49413200	Active TSS	A549	lung
42	chr12:49411800-49413200	Active TSS	HSMMtube	muscle
43	chr12:49411800-49413200	Active TSS	NHDF-Ad	bronchial
44	chr12:49411800-49413400	Active TSS	ES-I3 Cell Line	embryonic stem cell
45	chr12:49411800-49413400	Active TSS	HUES48 Cell Line	embryonic stem cell
46	chr12:49412000-49412400	Transcr. at gene 5' and 3'	Primary T helper 17 cells PMA-I stimulated	--
47	chr12:49412000-49412600	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
48	chr12:49412000-49412600	Active TSS	Spleen	Spleen
49	chr12:49412000-49412800	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
50	chr12:49412000-49412800	Active TSS	Primary T helper cells PMA-I stimulated	--

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