Variant report

Variant	rs1574343
Chromosome Location	chr6:12011664-12011665
allele	A/T
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	EGR1	chr6:12011101-12012668	K562	blood:	n/a	chr6:12011821-12011835
2	USF2	chr6:12011530-12011861	GM12878	blood:	n/a	n/a
3	USF1	chr6:12011513-12011783	A549	lung:	n/a	n/a
4	EP300	chr6:12011343-12011914	ECC-1	luminal epithelium:	n/a	n/a
5	POLR2A	chr6:12011102-12012133	HCT-116	colon:	n/a	n/a
6	MAFK	chr6:12010545-12011759	Hela-S3	cervix:	n/a	n/a
7	EBF1	chr6:12010483-12012310	GM12878	blood:	n/a	chr6:12010667-12010677
8	MEF2A	chr6:12010957-12011952	SK-N-SH	brain:	n/a	chr6:12011416-12011431 chr6:12011309-12011330 chr6:12011309-12011330
9	EP300	chr6:12011084-12011917	HepG2	liver:	n/a	chr6:12011101-12011115
10	ATF2	chr6:12011372-12011784	H1-hESC	embryonic stem cell:	n/a	chr6:12011566-12011580
11	USF2	chr6:12011615-12011773	HepG2	liver:	n/a	n/a
12	TCF12	chr6:12010979-12012135	SK-N-SH	brain:	n/a	n/a
13	POLR2A	chr6:12011550-12012418	PFSK-1	brain:	n/a	n/a
14	REST	chr6:12011478-12011755	SK-N-SH	brain:	n/a	n/a
15	MAZ	chr6:12010903-12013983	IMR90	lung:	n/a	chr6:12012886-12012896 chr6:12013443-12013453 chr6:12013078-12013088
16	TEAD4	chr6:12011052-12011975	SK-N-SH	brain:	n/a	n/a
17	JUND	chr6:12010678-12012189	K562	blood:	n/a	chr6:12011448-12011460 chr6:12011036-12011050 chr6:12011569-12011578
18	POLR2A	chr6:12010105-12013773	GM18526	blood:	n/a	n/a
19	EP300	chr6:12011379-12011971	T-47D	breast:	n/a	chr6:12011933-12011949
20	RAD21	chr6:12011506-12012099	K562	blood:	n/a	n/a
21	PAX5	chr6:12011245-12011685	GM12878	blood:	n/a	chr6:12011645-12011664
22	POLR2A	chr6:12008545-12013822	GM18951	blood:	n/a	n/a
23	CEBPB	chr6:12011171-12011779	K562	blood:	n/a	n/a
24	POLR2A	chr6:12008516-12013922	GM19193	blood:	n/a	n/a
25	USF1	chr6:12011440-12011924	SK-N-SH	brain:	n/a	n/a
26	TBP	chr6:12010743-12012679	K562	blood:	n/a	n/a
27	TCF12	chr6:12011296-12011704	GM12878	blood:	n/a	n/a
28	POLR2A	chr6:12011598-12013918	ProgFib	skin:	n/a	n/a
29	ATF3	chr6:12011613-12011737	GM12878	blood:	n/a	n/a
30	CREB1	chr6:12011034-12012367	HepG2	liver:	n/a	chr6:12011567-12011580
31	TEAD4	chr6:12011307-12011805	ECC-1	luminal epithelium:	n/a	n/a
32	POLR2A	chr6:12007817-12015834	GM12878	blood:	n/a	n/a
33	UBTF	chr6:12010585-12013855	K562	blood:	n/a	n/a
34	EP300	chr6:12009569-12011720	GM12878	blood:	n/a	chr6:12011101-12011115 chr6:12010307-12010317 chr6:12009953-12009967
35	POLR2A	chr6:12010933-12011888	HepG2	liver:	n/a	n/a
36	USF1	chr6:12011539-12011832	A549	lung:	n/a	n/a
37	POU2F2	chr6:12010851-12011807	GM12891	blood:	n/a	chr6:12011087-12011098
38	TCF7L2	chr6:12011072-12011733	Hela-S3	cervix:	n/a	n/a
39	TCF12	chr6:12010845-12011969	ECC-1	luminal epithelium:	n/a	n/a
40	CHD2	chr6:12010055-12011941	K562	blood:	n/a	chr6:12011541-12011551
41	TAF1	chr6:12011517-12011731	Hela-S3	cervix:	n/a	n/a
42	CEBPB	chr6:12010929-12011732	GM12878	blood:	n/a	n/a
43	RELA	chr6:12010383-12012385	GM19193	blood:	n/a	chr6:12011487-12011496 chr6:12011487-12011496
44	POLR2A	chr6:12007783-12012797	K562	blood:	n/a	n/a
45	FOS	chr6:12011241-12011796	MCF10A-Er-Src	breast:	n/a	chr6:12011448-12011460 chr6:12011569-12011578
46	ZNF143	chr6:12011091-12012376	GM12878	blood:	n/a	chr6:12012018-12012028
47	BCL11A	chr6:12010848-12011768	GM12878	blood:	n/a	chr6:12011543-12011556
48	TEAD4	chr6:12011035-12012390	SK-N-SH	brain:	n/a	n/a
49	POLR2A	chr6:12008239-12015396	IMR90	lung:	n/a	n/a
50	MAX	chr6:12011367-12011937	MCF-7	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr6:11873602..11875677-chr6:12009027..12011838,2	K562	blood:
2	chr6:12009789..12012137-chr6:12043704..12046977,3	MCF-7	breast:
3	chr6:11990522..11992970-chr6:12011349..12014154,2	MCF-7	breast:
4	chr6:11766943..11769804-chr6:12011580..12013984,2	MCF-7	breast:
5	chr6:11880134..11882606-chr6:12009831..12012097,2	K562	blood:
6	chr6:11766846..11771135-chr6:12008831..12011747,3	K562	blood:
7	chr6:11865768..11868889-chr6:12009325..12011874,3	K562	blood:
8	chr6:11990349..11993299-chr6:12011133..12012920,2	MCF-7	breast:
9	chr6:12010419..12012181-chr6:12045001..12046641,2	K562	blood:
10	chr6:11766544..11768808-chr6:12011516..12013304,2	MCF-7	breast:
11	chr6:11865768..11869319-chr6:12009325..12011874,4	K562	blood:
12	chr6:12009898..12015137-chr6:12286715..12292291,9	MCF-7	breast:
13	chr6:12009262..12013340-chr6:12286174..12290698,6	MCF-7	breast:
14	chr6:11796589..11798464-chr6:12010178..12011844,2	K562	blood:
15	chr16:284763..285582-chr6:12011450..12012007,2	Hela-S3	cervix:

Variant related genes	Relation type
HIVEP1	TF binding region
ENSG00000111863	Chromatin interaction
ENSG00000167930	Chromatin interaction
ENSG00000078401	Chromatin interaction
ENSG00000225102	Chromatin interaction

Extended variants
information (count: 80 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:74)

rs_ID	r²[population]
rs10947708	0.91[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs11751417	0.86[AMR][1000 genomes]
rs11753078	0.86[AMR][1000 genomes]
rs11753533	0.88[AMR][1000 genomes]
rs11967367	0.83[AMR][1000 genomes]
rs1409287	0.93[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs209807	0.80[AMR][1000 genomes]
rs57760403	0.86[AMR][1000 genomes]
rs62395280	0.93[AMR][1000 genomes]
rs62395444	0.83[AMR][1000 genomes]
rs62395445	0.83[AMR][1000 genomes]
rs62395447	0.86[AMR][1000 genomes]
rs62395448	0.86[AMR][1000 genomes]
rs62395449	0.86[AMR][1000 genomes]
rs62395450	0.86[AMR][1000 genomes]
rs62395451	0.86[AMR][1000 genomes]
rs62398268	0.91[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs62398271	0.91[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs62398272	0.93[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs72824063	0.83[AMR][1000 genomes]
rs72824066	0.83[AMR][1000 genomes]
rs72826014	0.91[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs7741598	0.93[AMR][1000 genomes]
rs7748578	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs7753800	0.90[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs9462320	0.83[AMR][1000 genomes]
rs9462323	0.83[AMR][1000 genomes]
rs9462325	0.85[AMR][1000 genomes]
rs9462326	0.85[AMR][1000 genomes]
rs9462327	0.85[AMR][1000 genomes]
rs9462328	0.86[AMR][1000 genomes]
rs9462329	0.86[AMR][1000 genomes]
rs9462335	0.86[AMR][1000 genomes]
rs9462336	0.83[AMR][1000 genomes]
rs9462338	0.86[AMR][1000 genomes]
rs9462342	0.86[AMR][1000 genomes]
rs9462365	0.91[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs9462378	0.91[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs9462379	0.93[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs9462407	0.93[AMR][1000 genomes]
rs9462408	0.93[AMR][1000 genomes]
rs9470618	0.83[AMR][1000 genomes]
rs9470623	0.83[AMR][1000 genomes]
rs9470625	0.86[AMR][1000 genomes]
rs9470627	0.86[AMR][1000 genomes]
rs9470628	0.85[AMR][1000 genomes]
rs9470629	0.85[AMR][1000 genomes]
rs9470631	0.86[AMR][1000 genomes]
rs9470634	0.86[AMR][1000 genomes]
rs9470638	0.86[AMR][1000 genomes]
rs9470643	0.85[AMR][1000 genomes]
rs9470644	0.86[AMR][1000 genomes]
rs9470647	0.86[AMR][1000 genomes]
rs9470649	0.86[AMR][1000 genomes]
rs9470652	0.86[AMR][1000 genomes]
rs9470673	0.88[AMR][1000 genomes]
rs9470682	0.91[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs9470692	0.91[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs9470698	0.91[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs9470699	0.91[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs9470713	0.91[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs9470718	0.91[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs9470720	0.91[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs9470721	0.91[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs9470741	0.93[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs9470749	0.90[AMR][1000 genomes]
rs9470750	0.90[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs9470752	0.90[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs9470754	0.90[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs9470756	0.88[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs9470780	0.93[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs9470793	0.93[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs9470808	0.93[AMR][1000 genomes]
rs9470821	0.93[AMR][1000 genomes]

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	nsv970323	chr6:12006884-12020375	Enhancers Active TSS Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	esv10446	chr6:12008060-12013799	Weak transcription Flanking Active TSS Active TSS Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
3	esv3340023	chr6:12010391-12013339	Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases
4	esv3325502	chr6:12010691-12013714	Flanking Active TSS Active TSS Weak transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases
5	esv3388541	chr6:12011066-12013514	Weak transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases
6	esv3327745	chr6:12011191-12014339	Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	7 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	chr6:12007400-12013400	Active TSS	K562	blood
2	chr6:12008000-12014000	Active TSS	H9 Cell Line	embryonic stem cell
3	chr6:12008200-12014000	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr6:12008400-12013600	Active TSS	Psoas Muscle	Psoas
5	chr6:12008400-12013800	Active TSS	Right Ventricle	heart
6	chr6:12008400-12014200	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr6:12008600-12011800	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr6:12008600-12014000	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr6:12008600-12014000	Active TSS	Colonic Mucosa	Colon
10	chr6:12008600-12014200	Active TSS	Breast Myoepithelial Primary Cells	Breast
11	chr6:12008600-12014400	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr6:12008600-12014400	Active TSS	Aorta	Aorta
13	chr6:12008800-12013600	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
14	chr6:12008800-12013800	Active TSS	NHEK	skin
15	chr6:12008800-12014400	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
16	chr6:12009000-12013000	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
17	chr6:12009600-12013000	Active TSS	Right Atrium	heart
18	chr6:12010400-12013800	Active TSS	Pancreatic Islets	Pancreatic Islet
19	chr6:12010600-12013600	Active TSS	HSMM	muscle
20	chr6:12010600-12013800	Active TSS	iPS-15b Cell Line	embryonic stem cell
21	chr6:12010600-12013800	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
22	chr6:12010600-12013800	Active TSS	Left Ventricle	heart
23	chr6:12010600-12013800	Active TSS	Lung	lung
24	chr6:12010600-12013800	Active TSS	NHDF-Ad	bronchial
25	chr6:12010600-12014000	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
26	chr6:12010600-12014000	Active TSS	Ovary	ovary
27	chr6:12010600-12014200	Active TSS	iPS-18 Cell Line	embryonic stem cell
28	chr6:12010600-12014400	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr6:12010800-12013600	Active TSS	H1 Derived Mesenchymal Stem Cells	ES cell derived
30	chr6:12010800-12013600	Active TSS	Brain Angular Gyrus	brain
31	chr6:12010800-12013600	Active TSS	Fetal Intestine Small	intestine
32	chr6:12010800-12013600	Active TSS	Pancreas	Pancrea
33	chr6:12010800-12013600	Active TSS	Sigmoid Colon	Sigmoid Colon
34	chr6:12010800-12013600	Active TSS	Stomach Smooth Muscle	stomach
35	chr6:12010800-12013600	Active TSS	HMEC	breast
36	chr6:12010800-12013800	Active TSS	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
37	chr6:12010800-12013800	Active TSS	HUES64 Cell Line	embryonic stem cell
38	chr6:12010800-12013800	Active TSS	Esophagus	oesophagus
39	chr6:12010800-12013800	Active TSS	Small Intestine	intestine
40	chr6:12010800-12014000	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
41	chr6:12010800-12014000	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr6:12010800-12014000	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
43	chr6:12010800-12014200	Active TSS	H1 Cell Line	embryonic stem cell
44	chr6:12010800-12014200	Active TSS	iPS-20b Cell Line	embryonic stem cell
45	chr6:12010800-12014200	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
46	chr6:12010800-12014400	Active TSS	HUES6 Cell Line	embryonic stem cell
47	chr6:12011000-12013200	Active TSS	Skeletal Muscle Female	skeletal muscle
48	chr6:12011000-12013400	Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
49	chr6:12011000-12013400	Active TSS	Primary T killer naive cells fromperipheralblood	blood
50	chr6:12011000-12013400	Active TSS	Rectal Smooth Muscle	rectum

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