Variant report

Variant	rs568915027
Chromosome Location	chr6:4775415-4775416
allele	C/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	TCF12	chr6:4775217-4776392	ECC-1	luminal epithelium:	n/a	chr6:4775769-4775779 chr6:4775743-4775751
2	MAX	chr6:4774820-4776399	ECC-1	luminal epithelium:	n/a	chr6:4775819-4775828 chr6:4776302-4776311
3	RAD21	chr6:4775348-4775637	SK-N-SH_RA	brain:	n/a	chr6:4775478-4775490
4	RUNX3	chr6:4775041-4775429	GM12878	blood:	n/a	n/a
5	ELF1	chr6:4775022-4776356	GM12878	blood:	n/a	chr6:4775990-4776002 chr6:4776041-4776050
6	POLR2A	chr6:4774735-4775894	H1-hESC	embryonic stem cell:	n/a	n/a
7	SP1	chr6:4775396-4776924	HCT-116	colon:	n/a	chr6:4776388-4776399 chr6:4776322-4776334 chr6:4776322-4776334 chr6:4776376-4776387 chr6:4776322-4776333 chr6:4776012-4776022 chr6:4776196-4776205
8	MAX	chr6:4774967-4777723	HepG2	liver:	n/a	chr6:4775819-4775828 chr6:4776302-4776311 chr6:4777256-4777266 chr6:4777552-4777562
9	POLR2A	chr6:4775007-4777491	MCF-7	breast:	n/a	n/a
10	CTCF	chr6:4775340-4775490	HCPEpiC	choroid plexus:	n/a	n/a
11	MAZ	chr6:4775403-4777742	GM12878	blood:	n/a	chr6:4775819-4775828 chr6:4776302-4776311 chr6:4777256-4777266
12	POLR2A	chr6:4775100-4775744	H1-hESC	embryonic stem cell:	n/a	n/a
13	TBP	chr6:4774792-4775824	H1-hESC	embryonic stem cell:	n/a	n/a
14	POLR2A	chr6:4775342-4777011	MCF-7	breast:	n/a	n/a
15	POLR2A	chr6:4774882-4775477	H1-hESC	embryonic stem cell:	n/a	n/a
16	MAX	chr6:4775253-4776912	HCT-116	colon:	n/a	chr6:4775819-4775828 chr6:4776302-4776311
17	MYC	chr6:4775342-4776933	NB4	blood:	n/a	chr6:4775819-4775828 chr6:4776302-4776311
18	SPI1	chr6:4775192-4775971	HL-60	blood:	n/a	chr6:4775492-4775505
19	POLR2A	chr6:4774822-4775895	PBDE	blood:	n/a	n/a
20	POLR2A	chr6:4775098-4775807	H1-hESC	embryonic stem cell:	n/a	n/a
21	POLR2A	chr6:4774970-4776396	ECC-1	luminal epithelium:	n/a	n/a
22	MAX	chr6:4774991-4777114	HepG2	liver:	n/a	chr6:4775819-4775828 chr6:4776302-4776311
23	RUNX3	chr6:4775011-4775416	GM12878	blood:	n/a	n/a
24	EBF1	chr6:4775348-4776082	GM12878	blood:	n/a	n/a
25	ZNF143	chr6:4775148-4775451	H1-hESC	embryonic stem cell:	n/a	n/a
26	MAX	chr6:4774814-4776896	ECC-1	luminal epithelium:	n/a	chr6:4775819-4775828 chr6:4776302-4776311
27	RAD21	chr6:4774615-4776316	H1-hESC	embryonic stem cell:	n/a	chr6:4775478-4775490 chr6:4775670-4775682 chr6:4775990-4776004
28	MTA3	chr6:4775043-4775726	GM12878	blood:	n/a	n/a
29	POLR2A	chr6:4775177-4778562	GM18505	blood:	n/a	n/a
30	MAX	chr6:4775358-4776841	A549	lung:	n/a	chr6:4775819-4775828 chr6:4776302-4776311
31	MAX	chr6:4775320-4776956	GM12878	blood:	n/a	chr6:4775819-4775828 chr6:4776302-4776311
32	MAZ	chr6:4774846-4778791	IMR90	lung:	n/a	chr6:4775819-4775828 chr6:4776302-4776311 chr6:4777256-4777266
33	POLR2A	chr6:4775315-4775616	H1-hESC	embryonic stem cell:	n/a	n/a
34	ZNF263	chr6:4774673-4775802	HEK293-T-REx	kidney:	n/a	chr6:4775322-4775331 chr6:4775366-4775387
35	SRF	chr6:4774811-4775531	ECC-1	luminal epithelium:	n/a	chr6:4775088-4775106 chr6:4775092-4775106 chr6:4775089-4775107
36	TCF12	chr6:4774876-4776102	ECC-1	luminal epithelium:	n/a	chr6:4775769-4775779 chr6:4775743-4775751
37	SIN3A	chr6:4772779-4776923	H1-hESC	embryonic stem cell:	n/a	chr6:4775707-4775717 chr6:4775835-4775846
38	MAX	chr6:4774829-4777021	MCF-7	breast:	n/a	chr6:4775819-4775828 chr6:4776302-4776311
39	EP300	chr6:4775077-4775428	GM12878	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:4475486..4477630-chr6:4774016..4775629,2	MCF-7	breast:

Variant related genes	Relation type
CDYL	TF binding region

Extended variants
information (count: 5 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3366530	chr6:4471528-4865322	ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription 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	10 gene(s)	inside rSNPs	diseases
2	esv3429586	chr6:4719363-4792438	Flanking Active TSS Bivalent Enhancer Active TSS Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv1023527	chr6:4729592-5387176	Strong transcription Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
4	esv2422499	chr6:4745428-5073222	Enhancers Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
5	esv3358796	chr6:4775353-4778326	Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:118 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:4772600-4776200	Active TSS	ES-WA7 Cell Line	embryonic stem cell
2	chr6:4772800-4777200	Active TSS	H1 Cell Line	embryonic stem cell
3	chr6:4772800-4777800	Active TSS	ES-I3 Cell Line	embryonic stem cell
4	chr6:4773000-4777400	Active TSS	HUES48 Cell Line	embryonic stem cell
5	chr6:4773000-4777600	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
6	chr6:4773200-4777400	Active TSS	H9 Cell Line	embryonic stem cell
7	chr6:4773200-4777400	Active TSS	iPS-18 Cell Line	embryonic stem cell
8	chr6:4773200-4777400	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr6:4773200-4777600	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
10	chr6:4773200-4778200	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr6:4774000-4775600	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
12	chr6:4774200-4778000	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr6:4774600-4775800	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
14	chr6:4774600-4777400	Active TSS	iPS-15b Cell Line	embryonic stem cell
15	chr6:4774800-4775800	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
16	chr6:4774800-4775800	Flanking Active TSS	Primary B cells from cord blood	blood
17	chr6:4774800-4775800	Flanking Active TSS	Primary hematopoietic stem cells	blood
18	chr6:4774800-4775800	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
19	chr6:4774800-4775800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
20	chr6:4774800-4777800	Active TSS	Brain Inferior Temporal Lobe	brain
21	chr6:4774800-4778000	Active TSS	Stomach Smooth Muscle	stomach
22	chr6:4775000-4775600	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
23	chr6:4775000-4775600	Bivalent/Poised TSS	Ganglion Eminence derived primary cultured neurospheres	brain
24	chr6:4775000-4775600	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
25	chr6:4775000-4775600	Flanking Bivalent TSS/Enh	Placenta	Placenta
26	chr6:4775000-4775600	Flanking Active TSS	Left Ventricle	heart
27	chr6:4775000-4775600	Active TSS	Right Atrium	heart
28	chr6:4775000-4775600	Flanking Active TSS	Right Ventricle	heart
29	chr6:4775000-4775600	Flanking Active TSS	Spleen	Spleen
30	chr6:4775000-4775600	Flanking Bivalent TSS/Enh	GM12878-XiMat	blood
31	chr6:4775000-4775600	Flanking Active TSS	HMEC	breast
32	chr6:4775000-4775600	Flanking Bivalent TSS/Enh	NH-A	brain
33	chr6:4775000-4775600	Flanking Active TSS	NHEK	skin
34	chr6:4775000-4775800	Flanking Bivalent TSS/Enh	Primary neutrophils fromperipheralblood	blood
35	chr6:4775000-4775800	Flanking Active TSS	Primary B cells from peripheral blood	blood
36	chr6:4775000-4775800	Flanking Active TSS	Primary T cells fromperipheralblood	blood
37	chr6:4775000-4775800	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
38	chr6:4775000-4775800	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
39	chr6:4775000-4775800	Flanking Active TSS	Primary T helper 17 cells PMA-I stimulated	--
40	chr6:4775000-4775800	Flanking Active TSS	Primary Natural Killer cells fromperipheralblood	blood
41	chr6:4775000-4775800	Flanking Bivalent TSS/Enh	Foreskin Fibroblast Primary Cells skin01	Skin
42	chr6:4775000-4775800	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
43	chr6:4775000-4775800	Flanking Active TSS	Adipose Nuclei	Adipose
44	chr6:4775000-4775800	Flanking Active TSS	Liver	Liver
45	chr6:4775000-4775800	Flanking Active TSS	Duodenum Mucosa	Duodenum
46	chr6:4775000-4775800	Flanking Bivalent TSS/Enh	Fetal Adrenal Gland	Adrenal Gland
47	chr6:4775000-4775800	Flanking Active TSS	Pancreas	Pancrea
48	chr6:4775000-4775800	Flanking Bivalent TSS/Enh	HepG2	liver
49	chr6:4775000-4777000	Transcr. at gene 5' and 3'	iPS DF 19.11 Cell Line	embryonic stem cell
50	chr6:4775000-4777000	Active TSS	Placenta Amnion	Placenta Amnion

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links