Variant report

Variant	rs552891086
Chromosome Location	chr11:58939599-58939600
allele	C/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	CTCF	chr11:58939394-58939638	LNCaP	prostate:	n/a	chr11:58939508-58939521
2	RELA	chr11:58938906-58939772	GM19099	blood:	n/a	n/a
3	YY1	chr11:58939348-58939648	HCT-116	colon:	n/a	n/a
4	SIN3A	chr11:58938945-58942122	H1-hESC	embryonic stem cell:	n/a	chr11:58939520-58939533 chr11:58941266-58941279
5	RAD21	chr11:58938811-58939703	A549	lung:	n/a	chr11:58939067-58939080 chr11:58939064-58939083 chr11:58939507-58939521 chr11:58939065-58939079 chr11:58939069-58939079
6	RAD21	chr11:58939310-58939641	GM12878	blood:	n/a	chr11:58939507-58939521
7	NFATC1	chr11:58938785-58939830	GM12878	blood:	n/a	n/a
8	ELF1	chr11:58939329-58939647	K562	blood:	n/a	n/a
9	MYC	chr11:58939437-58939676	HepG2	liver:	n/a	chr11:58939511-58939521
10	CTCF	chr11:58939460-58939610	SK-N-SH_RA	brain:	n/a	chr11:58939508-58939521
11	RAD21	chr11:58938812-58939690	Hela-S3	cervix:	n/a	chr11:58939067-58939080 chr11:58939064-58939083 chr11:58939507-58939521 chr11:58939065-58939079 chr11:58939069-58939079
12	MTA3	chr11:58938544-58939888	GM12878	blood:	n/a	n/a
13	CCNT2	chr11:58938942-58940172	K562	blood:	n/a	chr11:58939582-58939591 chr11:58939560-58939569
14	MAX	chr11:58938910-58939793	K562	blood:	n/a	chr11:58939511-58939521
15	SMARCB1	chr11:58939077-58941966	Hela-S3	cervix:	n/a	n/a
16	POU2F2	chr11:58938873-58941108	GM12878	blood:	n/a	chr11:58940304-58940316 chr11:58939780-58939798 chr11:58939563-58939575 chr11:58940301-58940313 chr11:58939785-58939792 chr11:58939784-58939794 chr11:58939104-58939116 chr11:58939784-58939793
17	RAD21	chr11:58938727-58939747	IMR90	lung:	n/a	chr11:58939067-58939080 chr11:58939064-58939083 chr11:58939507-58939521 chr11:58939065-58939079 chr11:58939069-58939079
18	CTCF	chr11:58939330-58939601	SK-N-SH_RA	brain:	n/a	chr11:58939508-58939521
19	POU2F2	chr11:58939575-58939768	GM12878	blood:	n/a	n/a
20	UBTF	chr11:58938984-58939703	K562	blood:	n/a	n/a
21	POLR2A	chr11:58939453-58939845	A549	lung:	n/a	n/a
22	YY1	chr11:58939225-58939819	GM12891	blood:	n/a	n/a
23	CTCF	chr11:58938362-58940223	SK-N-SH	brain:	n/a	chr11:58939063-58939081 chr11:58939066-58939079 chr11:58939066-58939075 chr11:58939106-58939116 chr11:58939064-58939080 chr11:58939508-58939521 chr11:58939068-58939078
24	POLR2A	chr11:58938795-58945281	GM12878	blood:	n/a	n/a
25	POLR2A	chr11:58938963-58941106	GM19099	blood:	n/a	n/a
26	RAD21	chr11:58938897-58939661	GM12878	blood:	n/a	chr11:58939067-58939080 chr11:58939064-58939083 chr11:58939507-58939521 chr11:58939065-58939079 chr11:58939069-58939079
27	ZBTB7A	chr11:58939386-58940023	K562	blood:	n/a	n/a
28	MAX	chr11:58938986-58939821	SK-N-SH	brain:	n/a	chr11:58939511-58939521
29	SMC3	chr11:58938856-58939661	HepG2	liver:	n/a	chr11:58939069-58939079 chr11:58939103-58939117 chr11:58939065-58939079
30	MAX	chr11:58938768-58940390	A549	lung:	n/a	chr11:58939511-58939521
31	MAX	chr11:58939322-58939804	ECC-1	luminal epithelium:	n/a	chr11:58939511-58939521
32	POLR2A	chr11:58939413-58939859	HCT-116	colon:	n/a	n/a
33	SP1	chr11:58938841-58939717	A549	lung:	n/a	chr11:58939110-58939120 chr11:58939581-58939593 chr11:58939582-58939591 chr11:58939110-58939120
34	BHLHE40	chr11:58938960-58939774	HepG2	liver:	n/a	n/a
35	TBL1XR1	chr11:58938940-58939639	K562	blood:	n/a	n/a
36	E2F6	chr11:58939137-58939848	K562	blood:	n/a	chr11:58939440-58939449
37	MAX	chr11:58938887-58939779	NB4	blood:	n/a	chr11:58939511-58939521
38	TCF12	chr11:58938800-58939777	A549	lung:	n/a	chr11:58939063-58939073
39	CTCF	chr11:58939397-58939639	MCF-7	breast:	n/a	chr11:58939508-58939521
40	RAD21	chr11:58939417-58939628	K562	blood:	n/a	chr11:58939507-58939521
41	EP300	chr11:58938926-58939830	ECC-1	luminal epithelium:	n/a	chr11:58939305-58939319 chr11:58939440-58939449
42	POLR2A	chr11:58939470-58939804	HepG2	liver:	n/a	n/a
43	POLR2A	chr11:58938940-58939899	H1-hESC	embryonic stem cell:	n/a	n/a
44	POU2F2	chr11:58939422-58939846	GM12878	blood:	n/a	chr11:58939780-58939798 chr11:58939563-58939575 chr11:58939785-58939792 chr11:58939784-58939794 chr11:58939784-58939793
45	POLR2A	chr11:58939087-58942313	GM12878	blood:	n/a	n/a
46	MYC	chr11:58939402-58939667	MCF-7	breast:	n/a	chr11:58939511-58939521
47	YY1	chr11:58939290-58939864	HepG2	liver:	n/a	n/a
48	CTCF	chr11:58938906-58939682	GM19238	blood:	n/a	chr11:58939063-58939081 chr11:58939066-58939079 chr11:58939066-58939075 chr11:58939106-58939116 chr11:58939064-58939080 chr11:58939508-58939521 chr11:58939068-58939078
49	FOXA1	chr11:58939522-58939858	HepG2	liver:	n/a	n/a
50	POLR2A	chr11:58939548-58939818	HepG2	liver:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr11:58939007..58939939-chr11:58975144..58976495,4	MCF-7	breast:
2	chr11:58938973..58939965-chr11:59447518..59448398,3	K562	blood:
3	chr11:58939119..58939626-chr11:58968685..58969428,2	K562	blood:
4	chr11:58939029..58939641-chr11:58968515..58969414,2	MCF-7	breast:

Variant related genes	Relation type
DTX4	TF binding region

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	nsv1050013	chr11:58394598-59221090	Active TSS Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer ZNF genes & repeats Genic enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
2	nsv948365	chr11:58515163-59156405	Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Strong transcription Genic enhancers Enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	59 gene(s)	inside rSNPs	diseases
3	esv2758272	chr11:58700092-59008673	Bivalent/Poised TSS Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
4	esv2759830	chr11:58700092-59008673	Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
5	esv1821250	chr11:58925860-59059179	Enhancers Flanking Active TSS Weak transcription Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
6	esv3427190	chr11:58938601-58941149	Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent/Poised TSS Weak transcription Enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
7	esv3399192	chr11:58938776-58941074	Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Weak transcription	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:58938600-58942000	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
2	chr11:58938800-58939800	Flanking Active TSS	Primary hematopoietic stem cells	blood
3	chr11:58938800-58939800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
4	chr11:58938800-58940200	Active TSS	H1 Cell Line	embryonic stem cell
5	chr11:58938800-58940200	Active TSS	HUES64 Cell Line	embryonic stem cell
6	chr11:58938800-58940200	Active TSS	iPS-20b Cell Line	embryonic stem cell
7	chr11:58938800-58940200	Active TSS	Primary T cells from cord blood	blood
8	chr11:58938800-58940200	Active TSS	Brain Angular Gyrus	brain
9	chr11:58938800-58940200	Active TSS	Brain Germinal Matrix	brain
10	chr11:58938800-58940200	Active TSS	Fetal Brain Female	brain
11	chr11:58938800-58940400	Active TSS	HUES6 Cell Line	embryonic stem cell
12	chr11:58938800-58940400	Active TSS	Primary T helper naive cells from peripheral blood	blood
13	chr11:58938800-58940400	Active TSS	Brain Hippocampus Middle	brain
14	chr11:58938800-58941200	Active TSS	Brain Cingulate Gyrus	brain
15	chr11:58938800-58941400	Active TSS	Brain Anterior Caudate	brain
16	chr11:58938800-58941800	Active TSS	Brain Inferior Temporal Lobe	brain
17	chr11:58939000-58939600	Flanking Active TSS	Primary B cells from cord blood	blood
18	chr11:58939000-58939600	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
19	chr11:58939000-58939600	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr11:58939000-58939600	Flanking Active TSS	Liver	Liver
21	chr11:58939000-58939600	Flanking Bivalent TSS/Enh	Skeletal Muscle Female	skeletal muscle
22	chr11:58939000-58939600	Active TSS	Stomach Smooth Muscle	stomach
23	chr11:58939000-58939600	Bivalent/Poised TSS	NH-A	brain
24	chr11:58939000-58939800	Active TSS	K562	blood
25	chr11:58939000-58940000	Active TSS	Primary neutrophils fromperipheralblood	blood
26	chr11:58939000-58940000	Active TSS	Primary T helper cells PMA-I stimulated	--
27	chr11:58939000-58940000	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
28	chr11:58939000-58940000	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
29	chr11:58939000-58940000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
30	chr11:58939000-58940000	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
31	chr11:58939000-58940000	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
32	chr11:58939000-58940000	Active TSS	Primary mononuclear cells fromperipheralblood	Blood
33	chr11:58939000-58940000	Active TSS	Pancreas	Pancrea
34	chr11:58939000-58940000	Active TSS	Right Ventricle	heart
35	chr11:58939000-58940000	Active TSS	Skeletal Muscle Male	skeletal muscle
36	chr11:58939000-58940000	Active TSS	Monocytes-CD14+_RO01746	blood
37	chr11:58939000-58940000	Active TSS	Osteobl	bone
38	chr11:58939000-58940200	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
39	chr11:58939000-58940200	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
40	chr11:58939000-58940200	Active TSS	Primary monocytes fromperipheralblood	blood
41	chr11:58939000-58940200	Active TSS	Primary T helper memory cells from peripheral blood 2	blood
42	chr11:58939000-58940200	Active TSS	Primary T helper memory cells from peripheral blood 1	blood
43	chr11:58939000-58940200	Active TSS	Primary T helper 17 cells PMA-I stimulated	--
44	chr11:58939000-58940200	Active TSS	Primary Natural Killer cells fromperipheralblood	blood
45	chr11:58939000-58940200	Active TSS	Primary T killer memory cells from peripheral blood	blood
46	chr11:58939000-58940200	Active TSS	Cortex derived primary cultured neurospheres	brain
47	chr11:58939000-58940200	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
48	chr11:58939000-58940200	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
49	chr11:58939000-58940200	Active TSS	Adipose Nuclei	Adipose
50	chr11:58939000-58940200	Active TSS	Colonic Mucosa	Colon

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links