Variant report

Variant	rs529181557
Chromosome Location	chr6:56911508-56911509
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:404)
CpG islands
(count:0)
Chromatin interactive
region (count:7)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:404 , 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	YY1	chr6:56911099-56911646	SK-N-SH_RA	brain:	n/a	chr6:56911530-56911544
2	TAF1	chr6:56911120-56911627	K562	blood:	n/a	n/a
3	PAX5	chr6:56911185-56911560	GM12892	blood:	n/a	n/a
4	CHD2	chr6:56911149-56911621	HepG2	liver:	n/a	n/a
5	POLR2A	chr6:56911170-56911867	A549	lung:	n/a	n/a
6	POLR2A	chr6:56911030-56912350	PFSK-1	brain:	n/a	n/a
7	POLR2A	chr6:56911092-56911752	GM19193	blood:	n/a	n/a
8	POU2F2	chr6:56911151-56912265	GM12891	blood:	n/a	n/a
9	GABPA	chr6:56911182-56911900	HepG2	liver:	n/a	n/a
10	POLR2A	chr6:56911075-56911635	ECC-1	luminal epithelium:	n/a	n/a
11	MXI1	chr6:56910842-56911694	SK-N-SH	brain:	n/a	n/a
12	POLR2A	chr6:56911041-56911624	K562	blood:	n/a	n/a
13	POLR2A	chr6:56911088-56912542	Hela-S3	cervix:	n/a	n/a
14	MAX	chr6:56911113-56911608	HepG2	liver:	n/a	n/a
15	TCF7L2	chr6:56911200-56911615	HCT-116	colon:	n/a	n/a
16	POLR2A	chr6:56911152-56911710	SK-N-SH	brain:	n/a	n/a
17	POLR2A	chr6:56911039-56911704	K562	blood:	n/a	n/a
18	NFIC	chr6:56911007-56911655	HepG2	liver:	n/a	n/a
19	TAF1	chr6:56911069-56911982	A549	lung:	n/a	n/a
20	HDAC2	chr6:56911074-56911548	H1-hESC	embryonic stem cell:	n/a	n/a
21	RCOR1	chr6:56911239-56911583	HepG2	liver:	n/a	n/a
22	POLR2A	chr6:56910960-56911741	MCF10A-Er-Src	breast:	n/a	n/a
23	MAX	chr6:56911135-56911576	A549	lung:	n/a	n/a
24	SIN3AK20	chr6:56911251-56912103	HepG2	liver:	n/a	n/a
25	ZBTB33	chr6:56911091-56911599	SK-N-SH	brain:	n/a	n/a
26	POLR2A	chr6:56911082-56911702	GM15510	blood:	n/a	n/a
27	SIN3AK20	chr6:56911064-56911656	MCF-7	breast:	n/a	n/a
28	MAX	chr6:56910986-56911611	HCT-116	colon:	n/a	n/a
29	RCOR1	chr6:56910836-56911588	Hela-S3	cervix:	n/a	n/a
30	TEAD4	chr6:56911007-56911701	HepG2	liver:	n/a	n/a
31	E2F6	chr6:56911080-56911597	H1-hESC	embryonic stem cell:	n/a	chr6:56911473-56911485
32	PML	chr6:56911006-56911662	K562	blood:	n/a	n/a
33	MYBL2	chr6:56910972-56912267	HepG2	liver:	n/a	n/a
34	TBL1XR1	chr6:56911103-56911540	K562	blood:	n/a	n/a
35	TCF7L2	chr6:56911115-56911525	PANC-1	pancreas:	n/a	chr6:56911116-56911130 chr6:56911115-56911131
36	PAX5	chr6:56911096-56912003	GM12878	blood:	n/a	n/a
37	POLR2A	chr6:56911077-56912261	Hela-S3	cervix:	n/a	n/a
38	YY1	chr6:56911112-56911666	HepG2	liver:	n/a	chr6:56911530-56911544
39	POLR2A	chr6:56911114-56911796	HepG2	liver:	n/a	n/a
40	POLR2A	chr6:56911023-56912997	K562	blood:	n/a	n/a
41	GABPA	chr6:56911070-56911584	SK-N-SH	brain:	n/a	n/a
42	TAF1	chr6:56911261-56912267	GM12891	blood:	n/a	n/a
43	IRF4	chr6:56911356-56912864	GM12878	blood:	n/a	n/a
44	POLR2A	chr6:56911162-56911857	A549	lung:	n/a	n/a
45	HDAC2	chr6:56911066-56911627	HepG2	liver:	n/a	n/a
46	NFYB	chr6:56911239-56911561	K562	blood:	n/a	n/a
47	TAF7	chr6:56911244-56911522	H1-hESC	embryonic stem cell:	n/a	n/a
48	MAZ	chr6:56911146-56911539	GM12878	blood:	n/a	n/a
49	POLR2A	chr6:56911082-56911679	Hela-S3	cervix:	n/a	n/a
50	BCLAF1	chr6:56910944-56911564	GM12878	blood:	n/a	n/a

No data

(count:7 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr11:62609199..62609722-chr6:56910991..56911946,2	Hela-S3	cervix:
2	chr6:56911241..56911877-chr6:56954515..56955089,3	Hela-S3	cervix:
3	chr20:48789062..48789587-chr6:56911313..56911879,2	Hela-S3	cervix:
4	chr6:56817930..56821539-chr6:56909452..56912838,6	K562	blood:
5	chr6:56910595..56916200-chr6:57035587..57038867,7	K562	blood:
6	chr6:56816669..56821714-chr6:56908406..56912975,10	K562	blood:
7	chr3:23987103..23988093-chr6:56911476..56911991,2	Hela-S3	cervix:

No data

Variant related genes	Relation type
KIAA1586	TF binding region
ENSG00000151914	Chromatin interaction
ENSG00000112200	Chromatin interaction
ENSG00000151917	Chromatin interaction
ENSG00000112208	Chromatin interaction
ENSG00000197885	Chromatin interaction
ENSG00000231742	Chromatin interaction
ENSG00000226803	Chromatin interaction
ENSG00000133316	Chromatin interaction
ENSG00000174738	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv491933	chr6:56177722-57171010	Active TSS Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats 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	51 gene(s)	inside rSNPs	diseases
2	nsv934026	chr6:56382056-57184218	Flanking Bivalent TSS/Enh Strong transcription Weak transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent/Poised TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
3	nsv533050	chr6:56504480-57297586	Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
4	nsv1021651	chr6:56569444-56966319	Flanking Active TSS Enhancers Weak transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
5	nsv538228	chr6:56569444-56966319	Active TSS Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
6	esv3430228	chr6:56830972-57079281	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
7	nsv1026524	chr6:56902544-56951703	Weak transcription Strong transcription Active TSS Enhancers Bivalent Enhancer Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
8	nsv970717	chr6:56903957-56955783	Active TSS Weak transcription Strong transcription Flanking Active TSS Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
9	nsv885913	chr6:56910884-56954439	Genic enhancers Weak transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:56910400-56911800	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr6:56910400-56911800	Active TSS	Primary T killer naive cells fromperipheralblood	blood
3	chr6:56910600-56911800	Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr6:56910600-56911800	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr6:56910600-56911800	Active TSS	HUES64 Cell Line	embryonic stem cell
6	chr6:56910800-56911600	Active TSS	ES-I3 Cell Line	embryonic stem cell
7	chr6:56910800-56911600	Active TSS	Primary T helper memory cells from peripheral blood 2	blood
8	chr6:56910800-56911600	Active TSS	Liver	Liver
9	chr6:56910800-56911600	Active TSS	Brain Inferior Temporal Lobe	brain
10	chr6:56910800-56911600	Active TSS	GM12878-XiMat	blood
11	chr6:56910800-56911800	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr6:56910800-56911800	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
13	chr6:56910800-56911800	Active TSS	HUES48 Cell Line	embryonic stem cell
14	chr6:56910800-56911800	Active TSS	HUES6 Cell Line	embryonic stem cell
15	chr6:56910800-56911800	Active TSS	iPS-20b Cell Line	embryonic stem cell
16	chr6:56910800-56911800	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr6:56910800-56911800	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr6:56910800-56911800	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr6:56910800-56911800	Active TSS	Breast Myoepithelial Primary Cells	Breast
20	chr6:56910800-56911800	Active TSS	Primary hematopoietic stem cells short term culture	blood
21	chr6:56910800-56911800	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
22	chr6:56910800-56911800	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr6:56910800-56911800	Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
24	chr6:56910800-56911800	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
25	chr6:56910800-56911800	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
26	chr6:56910800-56911800	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
27	chr6:56910800-56911800	Active TSS	Adipose Nuclei	Adipose
28	chr6:56910800-56911800	Active TSS	Brain Anterior Caudate	brain
29	chr6:56910800-56911800	Active TSS	Brain Cingulate Gyrus	brain
30	chr6:56910800-56911800	Active TSS	Brain Germinal Matrix	brain
31	chr6:56910800-56911800	Active TSS	Fetal Brain Female	brain
32	chr6:56910800-56911800	Active TSS	Fetal Kidney	kidney
33	chr6:56910800-56911800	Active TSS	Pancreatic Islets	Pancreatic Islet
34	chr6:56910800-56911800	Active TSS	Rectal Smooth Muscle	rectum
35	chr6:56910800-56911800	Active TSS	Right Ventricle	heart
36	chr6:56910800-56911800	Active TSS	Skeletal Muscle Male	skeletal muscle
37	chr6:56910800-56911800	Active TSS	Thymus	Thymus
38	chr6:56910800-56911800	Active TSS	A549	lung
39	chr6:56910800-56911800	Active TSS	HMEC	breast
40	chr6:56910800-56911800	Active TSS	NHDF-Ad	bronchial
41	chr6:56910800-56911800	Active TSS	NHLF	lung
42	chr6:56911000-56911600	Active TSS	ES-WA7 Cell Line	embryonic stem cell
43	chr6:56911000-56911600	Active TSS	H1 Cell Line	embryonic stem cell
44	chr6:56911000-56911600	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
45	chr6:56911000-56911600	Active TSS	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
46	chr6:56911000-56911600	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
47	chr6:56911000-56911600	Active TSS	Primary T cells from cord blood	blood
48	chr6:56911000-56911600	Active TSS	Primary hematopoietic stem cells	blood
49	chr6:56911000-56911600	Active TSS	Primary T helper naive cells from peripheral blood	blood
50	chr6:56911000-56911600	Active TSS	Primary T helper memory cells from peripheral blood 1	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links