Variant report

Variant	rs550392249
Chromosome Location	chr6:26521494-26521495
allele	A/G
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	ELF1	chr6:26521126-26521688	GM12878	blood:	n/a	n/a
2	BHLHE40	chr6:26521365-26521604	HepG2	liver:	n/a	n/a
3	CCNT2	chr6:26521141-26521617	K562	blood:	n/a	chr6:26521334-26521343 chr6:26521348-26521357
4	CEBPB	chr6:26521373-26522185	Hela-S3	cervix:	n/a	chr6:26521720-26521733
5	CHD2	chr6:26520852-26521620	Hela-S3	cervix:	n/a	n/a
6	ZEB1	chr6:26521239-26521582	GM12878	blood:	n/a	n/a
7	POLR2A	chr6:26520703-26521581	K562	blood:	n/a	n/a
8	ELK1	chr6:26521332-26522286	Hela-S3	cervix:	n/a	n/a
9	CEBPB	chr6:26521352-26521730	ECC-1	luminal epithelium:	n/a	n/a
10	GABPA	chr6:26521356-26521522	Hela-S3	cervix:	n/a	n/a
11	POLR2A	chr6:26520748-26521566	K562	blood:	n/a	n/a
12	GTF2B	chr6:26521105-26521576	K562	blood:	n/a	n/a
13	SIN3AK20	chr6:26521335-26521694	A549	lung:	n/a	n/a
14	ATF3	chr6:26521135-26521822	HCT-116	colon:	n/a	n/a
15	MAX	chr6:26521343-26522749	A549	lung:	n/a	n/a
16	FOSL2	chr6:26521214-26521661	HepG2	liver:	n/a	chr6:26521354-26521363
17	POLR2A	chr6:26520858-26521557	GM12892	blood:	n/a	n/a
18	REST	chr6:26521339-26521607	PFSK-1	brain:	n/a	n/a
19	EGR1	chr6:26520448-26521604	K562	blood:	n/a	chr6:26521323-26521336 chr6:26521328-26521343 chr6:26521329-26521342 chr6:26521322-26521337 chr6:26521047-26521061 chr6:26521350-26521363 chr6:26521083-26521097 chr6:26521332-26521341 chr6:26521327-26521337 chr6:26521063-26521077
20	REST	chr6:26521319-26521627	SK-N-SH	brain:	n/a	n/a
21	TCF12	chr6:26521113-26522795	A549	lung:	n/a	chr6:26521356-26521366
22	NRF1	chr6:26521156-26521620	GM12878	blood:	n/a	chr6:26521328-26521337
23	CHD2	chr6:26521343-26521600	K562	blood:	n/a	n/a
24	CEBPD	chr6:26520719-26521647	K562	blood:	n/a	n/a
25	POLR2A	chr6:26520815-26521559	MCF-7	breast:	n/a	n/a
26	BRCA1	chr6:26521372-26521799	H1-hESC	embryonic stem cell:	n/a	n/a
27	ATF2	chr6:26521251-26521774	GM12878	blood:	n/a	n/a
28	HSF1	chr6:26521326-26521631	HepG2	liver:	n/a	n/a
29	SP1	chr6:26521312-26521814	A549	lung:	n/a	chr6:26521324-26521338 chr6:26521327-26521339 chr6:26521334-26521343 chr6:26521328-26521338 chr6:26521327-26521339 chr6:26521333-26521345 chr6:26521328-26521337 chr6:26521329-26521338
30	FOSL2	chr6:26520718-26521810	SK-N-SH	brain:	n/a	chr6:26521014-26521024 chr6:26521354-26521363
31	POLR2A	chr6:26520967-26521658	A549	lung:	n/a	n/a
32	POLR2A	chr6:26521100-26521597	K562	blood:	n/a	n/a
33	SP1	chr6:26521174-26521677	A549	lung:	n/a	chr6:26521324-26521338 chr6:26521327-26521339 chr6:26521334-26521343 chr6:26521328-26521338 chr6:26521327-26521339 chr6:26521333-26521345 chr6:26521328-26521337 chr6:26521329-26521338
34	MAX	chr6:26520313-26521740	HepG2	liver:	n/a	chr6:26520811-26520818 chr6:26520809-26520818 chr6:26520810-26520820 chr6:26520809-26520819 chr6:26520810-26520819 chr6:26520810-26520819 chr6:26520808-26520821 chr6:26520808-26520823 chr6:26521328-26521338 chr6:26520809-26520820
35	RFX5	chr6:26521373-26521583	K562	blood:	n/a	n/a
36	MXI1	chr6:26520387-26522051	SK-N-SH	brain:	n/a	chr6:26520809-26520818
37	SMC3	chr6:26521182-26521605	K562	blood:	n/a	n/a
38	FOXA2	chr6:26521188-26521580	A549	lung:	n/a	n/a
39	POLR2A	chr6:26521101-26522419	PANC-1	pancreas:	n/a	n/a
40	MYBL2	chr6:26521212-26521817	HepG2	liver:	n/a	n/a
41	ARID3A	chr6:26521339-26521708	HepG2	liver:	n/a	n/a
42	FOSL2	chr6:26521306-26522034	A549	lung:	n/a	chr6:26521354-26521363
43	ELK4	chr6:26521493-26522044	Hela-S3	cervix:	n/a	n/a
44	POLR2A	chr6:26521337-26521606	H1-hESC	embryonic stem cell:	n/a	n/a
45	MAX	chr6:26520515-26521763	HCT-116	colon:	n/a	chr6:26520811-26520818 chr6:26520809-26520818 chr6:26520810-26520820 chr6:26520809-26520819 chr6:26520810-26520819 chr6:26520810-26520819 chr6:26520808-26520821 chr6:26520808-26520823 chr6:26521328-26521338 chr6:26520809-26520820
46	POU2F2	chr6:26521332-26521579	GM12891	blood:	n/a	n/a
47	ATF3	chr6:26521073-26522259	K562	blood:	n/a	chr6:26522056-26522065
48	TAF1	chr6:26521328-26521586	Hela-S3	cervix:	n/a	n/a
49	CBX3	chr6:26521223-26522686	K562	blood:	n/a	n/a
50	FOSL2	chr6:26521210-26521682	MCF-7	breast:	n/a	chr6:26521354-26521363

No.	Distal block	Cell Line	Cell type
1	chr6:26297237..26299588-chr6:26519952..26522018,2	K562	blood:
2	chr6:26101462..26104336-chr6:26520946..26522887,2	MCF-7	breast:
3	chr17:8339183..8340052-chr6:26520850..26521728,2	Hela-S3	cervix:
4	chr6:26383299..26384986-chr6:26520070..26522600,2	K562	blood:
5	chr6:26420252..26422779-chr6:26519711..26522673,2	K562	blood:
6	chr6:26198124..26199998-chr6:26520705..26522799,2	K562	blood:
7	chr6:26229652..26232354-chr6:26520028..26522000,2	K562	blood:
8	chr6:26157128..26159753-chr6:26519202..26521718,3	K562	blood:
9	chr6:26520764..26524239-chr6:26594606..26597481,4	K562	blood:
10	chr6:26234528..26236146-chr6:26520612..26523386,2	K562	blood:
11	chr6:26195075..26199998-chr6:26518402..26523264,7	K562	blood:
12	chr6:26518768..26523261-chr6:26527138..26531427,8	MCF-7	breast:
13	chr6:26217116..26219858-chr6:26520988..26523268,4	K562	blood:
14	chr6:26319791..26322184-chr6:26520367..26521947,2	K562	blood:
15	chr6:26187831..26190328-chr6:26520761..26523308,3	K562	blood:
16	chr6:26122811..26125684-chr6:26519933..26522732,4	K562	blood:
17	chr6:26341603..26342500-chr6:26520725..26521500,3	K562	blood:
18	chr6:26517743..26520869-chr6:26521157..26524450,4	MCF-7	breast:
19	chr6:26352176..26356420-chr6:26519489..26524545,4	K562	blood:
20	chr6:26520627..26522671-chr6:26536742..26539578,4	MCF-7	breast:
21	chr6:26248591..26251636-chr6:26519454..26522320,3	K562	blood:
22	chr6:26520458..26524632-chr6:26536427..26540091,8	MCF-7	breast:
23	chr6:26352931..26356420-chr6:26520848..26524138,3	K562	blood:
24	chr6:26519250..26523737-chr6:27099178..27105777,8	K562	blood:
25	chr6:26457960..26461047-chr6:26519488..26522400,3	MCF-7	breast:
26	chr6:26203687..26207464-chr6:26521178..26524047,5	K562	blood:
27	chr6:26420245..26422646-chr6:26519763..26522632,2	K562	blood:
28	chr6:26399787..26402548-chr6:26520304..26522588,2	K562	blood:
29	chr6:26215412..26219085-chr6:26518224..26524021,6	K562	blood:
30	chr6:26122246..26124996-chr6:26519353..26522732,3	K562	blood:
31	chr6:26187760..26190799-chr6:26518890..26523308,5	K562	blood:
32	chr6:26364672..26366648-chr6:26519902..26522691,2	K562	blood:
33	chr6:26360935..26366570-chr6:26520779..26523276,5	K562	blood:
34	chr6:26284286..26286997-chr6:26519588..26522057,2	K562	blood:
35	chr6:26520371..26522004-chr6:27113193..27114715,2	K562	blood:
36	chr6:26283829..26285786-chr6:26519588..26522507,3	K562	blood:
37	chr6:26440218..26442900-chr6:26520172..26522018,2	K562	blood:

Variant related genes	Relation type
HCG11	TF binding region
RNU6-502P	TF binding region
ENSG00000256316	Chromatin interaction
ENSG00000146109	Chromatin interaction
ENSG00000124508	Chromatin interaction
ENSG00000112763	Chromatin interaction
ENSG00000197409	Chromatin interaction
ENSG00000124635	Chromatin interaction
ENSG00000158406	Chromatin interaction
ENSG00000196866	Chromatin interaction
ENSG00000168274	Chromatin interaction
ENSG00000124575	Chromatin interaction
ENSG00000158373	Chromatin interaction
ENSG00000180596	Chromatin interaction
ENSG00000186470	Chromatin interaction
ENSG00000166579	Chromatin interaction
ENSG00000187990	Chromatin interaction
ENSG00000124549	Chromatin interaction
ENSG00000111801	Chromatin interaction
ENSG00000198518	Chromatin interaction
ENSG00000180573	Chromatin interaction
ENSG00000188987	Chromatin interaction
ENSG00000216331	Chromatin interaction
ENSG00000196787	Chromatin interaction
ENSG00000199289	Chromatin interaction
ENSG00000215979	Chromatin interaction
ENSG00000026950	Chromatin interaction
ENSG00000197061	Chromatin interaction
ENSG00000182952	Chromatin interaction
ENSG00000252399	Chromatin interaction
ENSG00000197846	Chromatin interaction
ENSG00000197903	Chromatin interaction
ENSG00000261353	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	nsv1029920	chr6:25638507-26585842	Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Enhancers Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Active TSS Genic enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1215 gene(s)	inside rSNPs	diseases
2	nsv538162	chr6:25638507-26585842	Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Weak transcription Strong transcription Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1215 gene(s)	inside rSNPs	diseases
3	nsv1023453	chr6:25853830-26528250	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1201 gene(s)	inside rSNPs	diseases
4	nsv482407	chr6:26369320-26550148	Active TSS Strong transcription Flanking Active TSS Weak transcription Genic enhancers ZNF genes & repeats Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	62 gene(s)	inside rSNPs	diseases
5	esv3421845	chr6:26519998-26522546	Active TSS Enhancers Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	39 gene(s)	inside rSNPs	diseases
6	esv3415199	chr6:26520373-26522371	Active TSS Enhancers Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	39 gene(s)	inside rSNPs	diseases
7	esv3374626	chr6:26520998-26523546	Flanking Active TSS Active TSS Enhancers Weak transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	37 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:26520400-26521600	Active TSS	Liver	Liver
2	chr6:26520400-26522400	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr6:26520400-26522800	Active TSS	Brain Angular Gyrus	brain
4	chr6:26520400-26522800	Active TSS	Fetal Lung	lung
5	chr6:26520400-26522800	Active TSS	HSMMtube	muscle
6	chr6:26520400-26523000	Active TSS	ES-WA7 Cell Line	embryonic stem cell
7	chr6:26520400-26523000	Active TSS	Rectal Mucosa Donor 29	rectum
8	chr6:26520400-26523200	Active TSS	Breast Myoepithelial Primary Cells	Breast
9	chr6:26520600-26521800	Active TSS	Right Atrium	heart
10	chr6:26520600-26522000	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr6:26520600-26522000	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr6:26520600-26522200	Active TSS	Left Ventricle	heart
13	chr6:26520600-26522400	Active TSS	Pancreas	Pancrea
14	chr6:26520600-26522400	Active TSS	Placenta Amnion	Placenta Amnion
15	chr6:26520600-26522600	Active TSS	Pancreatic Islets	Pancreatic Islet
16	chr6:26520600-26522800	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
17	chr6:26520600-26522800	Active TSS	Colonic Mucosa	Colon
18	chr6:26520600-26522800	Active TSS	Fetal Brain Female	brain
19	chr6:26520600-26522800	Active TSS	Ovary	ovary
20	chr6:26520600-26522800	Active TSS	Sigmoid Colon	Sigmoid Colon
21	chr6:26520600-26523000	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
22	chr6:26520600-26523000	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
23	chr6:26520600-26523000	Active TSS	Psoas Muscle	Psoas
24	chr6:26520600-26523200	Active TSS	Duodenum Smooth Muscle	Duodenum
25	chr6:26520600-26523200	Active TSS	Fetal Stomach	stomach
26	chr6:26520600-26523400	Active TSS	H9 Cell Line	embryonic stem cell
27	chr6:26520600-26523400	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
28	chr6:26520600-26523400	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
29	chr6:26520600-26523400	Active TSS	Brain Substantia Nigra	brain
30	chr6:26520600-26523600	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
31	chr6:26520600-26523800	Active TSS	ES-I3 Cell Line	embryonic stem cell
32	chr6:26520600-26523800	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
33	chr6:26520600-26524400	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
34	chr6:26520800-26521600	Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
35	chr6:26520800-26521600	Active TSS	Brain Germinal Matrix	brain
36	chr6:26520800-26521800	Active TSS	Monocytes-CD14+_RO01746	blood
37	chr6:26520800-26522200	Active TSS	Skeletal Muscle Male	skeletal muscle
38	chr6:26520800-26522400	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
39	chr6:26520800-26522400	Active TSS	Duodenum Mucosa	Duodenum
40	chr6:26520800-26522400	Active TSS	Esophagus	oesophagus
41	chr6:26520800-26522600	Active TSS	Primary T regulatory cells fromperipheralblood	blood
42	chr6:26520800-26522600	Active TSS	Primary T killer memory cells from peripheral blood	blood
43	chr6:26520800-26522600	Active TSS	Aorta	Aorta
44	chr6:26520800-26522600	Active TSS	NHLF	lung
45	chr6:26520800-26522800	Active TSS	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
46	chr6:26520800-26522800	Active TSS	Brain Hippocampus Middle	brain
47	chr6:26520800-26522800	ZNF genes & repeats	Fetal Brain Male	brain
48	chr6:26520800-26522800	Active TSS	Lung	lung
49	chr6:26520800-26522800	Active TSS	Rectal Smooth Muscle	rectum
50	chr6:26520800-26522800	Active TSS	Right Ventricle	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links