Variant report

Variant	rs1515060
Chromosome Location	chr11:36586322-36586323
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	RAD21	chr11:36585921-36586348	GM12878	blood:	n/a	chr11:36586096-36586115
2	CTCF	chr11:36586306-36586369	NHEK	skin:	n/a	n/a
3	TBL1XR1	chr11:36585935-36586363	GM12878	blood:	n/a	n/a
4	EP300	chr11:36586187-36586936	K562	blood:	n/a	n/a
5	RAD21	chr11:36585870-36586394	MCF-7	breast:	n/a	chr11:36586096-36586115
6	CTCF	chr11:36585945-36586358	MCF-7	breast:	n/a	chr11:36586095-36586113
7	RAD21	chr11:36585862-36586394	H1-hESC	embryonic stem cell:	n/a	chr11:36586096-36586115
8	GATA3	chr11:36586309-36587097	SK-N-SH	brain:	n/a	chr11:36586736-36586753 chr11:36586806-36586822 chr11:36586810-36586819 chr11:36586740-36586761
9	RAD21	chr11:36585885-36586418	SK-N-SH_RA	brain:	n/a	chr11:36586096-36586115
10	CTCF	chr11:36585836-36586357	A549	lung:	n/a	chr11:36586095-36586113
11	CTCF	chr11:36585849-36586351	HepG2	liver:	n/a	chr11:36586095-36586113
12	SMC3	chr11:36585539-36587424	SK-N-SH	brain:	n/a	n/a
13	GATA1	chr11:36585787-36587421	K562	blood:	n/a	chr11:36586736-36586753 chr11:36586806-36586822 chr11:36586810-36586819 chr11:36586740-36586761
14	RAD21	chr11:36585855-36586339	IMR90	lung:	n/a	chr11:36586096-36586115
15	EP300	chr11:36585598-36588260	SK-N-SH	brain:	n/a	n/a
16	CTCF	chr11:36586291-36586378	MCF-7	breast:	n/a	n/a
17	RAD21	chr11:36585847-36587160	SK-N-SH_RA	brain:	n/a	chr11:36586096-36586115
18	RAD21	chr11:36585856-36586407	A549	lung:	n/a	chr11:36586096-36586115
19	MAX	chr11:36585938-36586500	SK-N-SH	brain:	n/a	n/a
20	CTCF	chr11:36586275-36586408	A549	lung:	n/a	n/a
21	CTCF	chr11:36585858-36586367	T-47D	breast:	n/a	chr11:36586095-36586113
22	SMC3	chr11:36585909-36586376	K562	blood:	n/a	n/a
23	RAD21	chr11:36585484-36587641	SK-N-SH	brain:	n/a	chr11:36586096-36586115
24	CTCF	chr11:36585960-36586330	GM12878	blood:	n/a	chr11:36586095-36586113
25	CTCF	chr11:36586304-36586358	MCF-7	breast:	n/a	n/a
26	CTCF	chr11:36586300-36586450	SAEC	small airway:	n/a	n/a
27	CTCF	chr11:36585896-36586406	GM12878	blood:	n/a	chr11:36586095-36586113
28	CTCF	chr11:36585531-36587392	SK-N-SH	brain:	n/a	chr11:36586095-36586113
29	SMC3	chr11:36585929-36586323	HepG2	liver:	n/a	n/a
30	CTCF	chr11:36585271-36586703	A549	lung:	n/a	chr11:36586095-36586113
31	RAD21	chr11:36585842-36586343	MCF-7	breast:	n/a	chr11:36586096-36586115
32	RAD21	chr11:36585849-36586404	ECC-1	luminal epithelium:	n/a	chr11:36586096-36586115
33	CTCF	chr11:36585853-36586380	HCT-116	colon:	n/a	chr11:36586095-36586113
34	CTCF	chr11:36586297-36586401	GM19239	blood:	n/a	n/a
35	CTCF	chr11:36585881-36586459	MCF-7	breast:	n/a	chr11:36586095-36586113
36	RAD21	chr11:36585908-36586412	H1-hESC	embryonic stem cell:	n/a	chr11:36586096-36586115
37	RAD21	chr11:36585925-36586373	ECC-1	luminal epithelium:	n/a	chr11:36586096-36586115
38	RAD21	chr11:36585917-36586354	HepG2	liver:	n/a	chr11:36586096-36586115
39	CTCF	chr11:36586317-36586360	GM12892	blood:	n/a	n/a
40	TCF12	chr11:36585959-36587159	SK-N-SH	brain:	n/a	n/a
41	CTCF	chr11:36586272-36586399	GM12891	blood:	n/a	n/a
42	GATA3	chr11:36586001-36587160	SK-N-SH	brain:	n/a	chr11:36586736-36586753 chr11:36586806-36586822 chr11:36586810-36586819 chr11:36586740-36586761
43	GATA2	chr11:36586031-36587299	SH-SY5Y	brain:	n/a	chr11:36586736-36586753 chr11:36586806-36586822 chr11:36586810-36586819 chr11:36586740-36586761
44	GTF2F1	chr11:36586177-36586344	H1-hESC	embryonic stem cell:	n/a	n/a
45	CTCF	chr11:36586278-36586400	GM19240	blood:	n/a	n/a
46	CTCF	chr11:36586306-36586384	Kidney_OC	kidney:	n/a	n/a
47	CTCF	chr11:36586284-36586395	Fibrobl	skin:	n/a	n/a
48	RAD21	chr11:36585825-36586447	A549	lung:	n/a	chr11:36586096-36586115
49	CTCF	chr11:36585889-36586333	IMR90	lung:	n/a	chr11:36586095-36586113
50	RAD21	chr11:36585827-36586433	HCT-116	colon:	n/a	chr11:36586096-36586115

No.	Distal block	Cell Line	Cell type
1	chr11:36585356..36589056-chr11:36590125..36594232,4	K562	blood:
2	chr11:36585718..36586807-chr11:36768335..36769499,7	MCF-7	breast:
3	chr11:36586002..36586650-chr11:36768339..36769255,5	MCF-7	breast:
4	chr11:36585864..36586647-chr11:36643987..36644963,5	MCF-7	breast:
5	chr11:36583929..36586426-chr11:36615701..36617624,2	MCF-7	breast:
6	chr11:36585768..36586611-chr11:36768401..36769196,4	K562	blood:
7	chr11:36585872..36586620-chr11:36765861..36766774,5	MCF-7	breast:

Variant related genes	Relation type
RAG1	TF binding region
ENSG00000175097	Chromatin interaction
ENSG00000166352	Chromatin interaction

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs11033683	0.93[JPT][hapmap]
rs11033695	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11033696	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11033698	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11033699	0.95[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11033703	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11033715	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12225867	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1356049	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.91[YRI][hapmap]
rs1399602	1.00[CEU][hapmap];0.92[CHB][hapmap];0.92[JPT][hapmap];0.90[YRI][hapmap]
rs2133164	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2422294	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap]
rs4151002	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs5030414	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs5030416	0.95[CEU][hapmap];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs5030419	0.86[CEU][hapmap]
rs56345614	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61877432	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs61880060	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs61880061	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7105311	0.84[EUR][1000 genomes]
rs7479143	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7944264	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv467791	chr11:36108497-36999385	Flanking Active TSS Weak transcription Strong transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	nsv554003	chr11:36108497-36999385	ZNF genes & repeats Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
3	nsv832123	chr11:36582872-36757443	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:93 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:36582000-36587000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr11:36585600-36587800	Enhancers	Dnd41	blood
3	chr11:36585800-36586400	Enhancers	iPS-15b Cell Line	embryonic stem cell
4	chr11:36586000-36586400	Active TSS	HUES64 Cell Line	embryonic stem cell
5	chr11:36586000-36586400	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr11:36586000-36586400	Active TSS	Brain Angular Gyrus	brain
7	chr11:36586000-36586400	Active TSS	Brain Anterior Caudate	brain
8	chr11:36586000-36586400	Active TSS	Brain Inferior Temporal Lobe	brain
9	chr11:36586000-36586400	Active TSS	Rectal Smooth Muscle	rectum
10	chr11:36586000-36586400	Active TSS	Right Atrium	heart
11	chr11:36586000-36586400	Active TSS	Thymus	Thymus
12	chr11:36586000-36586400	Bivalent/Poised TSS	A549	lung
13	chr11:36586000-36586600	Bivalent/Poised TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr11:36586000-36586600	Bivalent/Poised TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr11:36586000-36586600	Bivalent/Poised TSS	Primary B cells from cord blood	blood
16	chr11:36586000-36586600	Bivalent Enhancer	Primary T helper cells PMA-I stimulated	--
17	chr11:36586000-36586600	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
18	chr11:36586000-36586600	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr11:36586000-36586600	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
20	chr11:36586000-36586600	Active TSS	Brain Hippocampus Middle	brain
21	chr11:36586000-36586600	Active TSS	Colon Smooth Muscle	Colon
22	chr11:36586000-36586600	Active TSS	Duodenum Smooth Muscle	Duodenum
23	chr11:36586000-36586600	Flanking Active TSS	Fetal Kidney	kidney
24	chr11:36586000-36586600	Active TSS	Pancreatic Islets	Pancreatic Islet
25	chr11:36586000-36586600	Bivalent/Poised TSS	HSMMtube	muscle
26	chr11:36586000-36586600	Bivalent/Poised TSS	Monocytes-CD14+_RO01746	blood
27	chr11:36586000-36586600	Bivalent/Poised TSS	NH-A	brain
28	chr11:36586000-36586800	Active TSS	Stomach Smooth Muscle	stomach
29	chr11:36586200-36586400	Bivalent/Poised TSS	ES-WA7 Cell Line	embryonic stem cell
30	chr11:36586200-36586400	Flanking Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr11:36586200-36586400	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
32	chr11:36586200-36586400	Bivalent/Poised TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
33	chr11:36586200-36586400	Enhancers	HUES48 Cell Line	embryonic stem cell
34	chr11:36586200-36586400	Active TSS	HUES6 Cell Line	embryonic stem cell
35	chr11:36586200-36586400	Active TSS	iPS-20b Cell Line	embryonic stem cell
36	chr11:36586200-36586400	Enhancers	Breast Myoepithelial Primary Cells	Breast
37	chr11:36586200-36586400	Flanking Bivalent TSS/Enh	Primary monocytes fromperipheralblood	blood
38	chr11:36586200-36586400	Flanking Bivalent TSS/Enh	Primary T cells from cord blood	blood
39	chr11:36586200-36586400	Flanking Bivalent TSS/Enh	Primary T cells fromperipheralblood	blood
40	chr11:36586200-36586400	Flanking Bivalent TSS/Enh	Primary T helper naive cells fromperipheralblood	blood
41	chr11:36586200-36586400	Flanking Bivalent TSS/Enh	Primary T helper 17 cells PMA-I stimulated	--
42	chr11:36586200-36586400	Active TSS	Primary T helper cells fromperipheralblood	blood
43	chr11:36586200-36586400	Flanking Bivalent TSS/Enh	Primary Natural Killer cells fromperipheralblood	blood
44	chr11:36586200-36586400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
45	chr11:36586200-36586400	Bivalent Enhancer	Muscle Satellite Cultured Cells	--
46	chr11:36586200-36586400	Bivalent/Poised TSS	Foreskin Fibroblast Primary Cells skin02	Skin
47	chr11:36586200-36586400	Active TSS	Colonic Mucosa	Colon
48	chr11:36586200-36586400	Active TSS	Duodenum Mucosa	Duodenum
49	chr11:36586200-36586400	Bivalent/Poised TSS	Fetal Brain Male	brain
50	chr11:36586200-36586400	Active TSS	Fetal Heart	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links