Variant report

Variant	rs61888886
Chromosome Location	chr11:57093172-57093173
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	MAX	chr11:57092448-57093375	ECC-1	luminal epithelium:	n/a	n/a
2	CTCF	chr11:57093040-57093190	SAEC	small airway:	n/a	n/a
3	MAX	chr11:57091997-57093326	K562	blood:	n/a	chr11:57092097-57092106
4	E2F4	chr11:57092375-57093303	MCF10A-Er-Src	breast:	n/a	n/a
5	TBP	chr11:57092417-57093407	Hela-S3	cervix:	n/a	n/a
6	RCOR1	chr11:57092472-57093327	Hela-S3	cervix:	n/a	n/a
7	POLR2A	chr11:57092369-57093469	H1-hESC	embryonic stem cell:	n/a	n/a
8	RAD21	chr11:57092528-57093285	IMR90	lung:	n/a	n/a
9	HCFC1	chr11:57092287-57093263	K562	blood:	n/a	n/a
10	EP300	chr11:57092451-57093350	K562	blood:	n/a	chr11:57092774-57092790
11	REST	chr11:57092409-57093184	HL-60	blood:	n/a	chr11:57092715-57092728
12	TBL1XR1	chr11:57092485-57093369	K562	blood:	n/a	n/a
13	STAT3	chr11:57092488-57093509	MCF10A-Er-Src	breast:	n/a	chr11:57092972-57092992 chr11:57092978-57092986 chr11:57092944-57092952
14	MAZ	chr11:57091646-57093233	Hela-S3	cervix:	n/a	chr11:57092097-57092106 chr11:57091829-57091839
15	SP4	chr11:57092410-57093262	H1-hESC	embryonic stem cell:	n/a	chr11:57092462-57092478
16	NFIC	chr11:57092404-57093483	GM12878	blood:	n/a	n/a
17	POLR2A	chr11:57092020-57093444	ECC-1	luminal epithelium:	n/a	n/a
18	POLR2A	chr11:57092276-57093933	PANC-1	pancreas:	n/a	n/a
19	ATF2	chr11:57092427-57093405	GM12878	blood:	n/a	n/a
20	POLR2A	chr11:57092319-57093655	U87	brain:	n/a	n/a
21	NR3C1	chr11:57093034-57093484	A549	lung:	n/a	chr11:57093323-57093349 chr11:57093323-57093349 chr11:57093329-57093343 chr11:57093328-57093344 chr11:57093325-57093346 chr11:57093328-57093344 chr11:57093328-57093344 chr11:57093323-57093349 chr11:57093329-57093343 chr11:57093327-57093344 chr11:57093328-57093343 chr11:57093329-57093343 chr11:57093328-57093344 chr11:57093323-57093349
22	POLR2A	chr11:57092269-57093515	Hela-S3	cervix:	n/a	n/a
23	RELA	chr11:57092496-57093366	GM19193	blood:	n/a	n/a
24	POLR2A	chr11:57092375-57093470	GM12891	blood:	n/a	n/a
25	POLR2A	chr11:57092277-57093613	HUVEC	blood vessel:	n/a	n/a
26	POLR2A	chr11:57092272-57093830	SK-N-SH	brain:	n/a	n/a
27	MXI1	chr11:57088908-57093652	IMR90	lung:	n/a	chr11:57091416-57091431 chr11:57090118-57090133 chr11:57090120-57090135
28	RAD21	chr11:57092977-57093265	SK-N-SH_RA	brain:	n/a	n/a
29	BCL3	chr11:57092402-57093240	A549	lung:	n/a	chr11:57092715-57092724
30	POLR2A	chr11:57092292-57093593	HUVEC	blood vessel:	n/a	n/a
31	POLR2A	chr11:57092405-57093682	K562	blood:	n/a	n/a
32	CTCF	chr11:57093060-57093210	Caco-2	colon:	n/a	n/a
33	MXI1	chr11:57092486-57093378	H1-hESC	embryonic stem cell:	n/a	n/a
34	MAX	chr11:57091991-57093302	A549	lung:	n/a	chr11:57092097-57092106
35	POLR2A	chr11:57092313-57093679	U87	brain:	n/a	n/a
36	SMARCB1	chr11:57091464-57093354	Hela-S3	cervix:	n/a	n/a
37	POLR2A	chr11:57091891-57093482	K562	blood:	n/a	n/a
38	POLR2A	chr11:57092427-57093304	GM12891	blood:	n/a	n/a
39	POLR2A	chr11:57091939-57093572	HepG2	liver:	n/a	n/a
40	BHLHE40	chr11:57092369-57093352	K562	blood:	n/a	chr11:57093097-57093113
41	NR3C1	chr11:57093086-57093467	ECC-1	luminal epithelium:	n/a	chr11:57093323-57093349 chr11:57093323-57093349 chr11:57093329-57093343 chr11:57093328-57093344 chr11:57093325-57093346 chr11:57093328-57093344 chr11:57093328-57093344 chr11:57093323-57093349 chr11:57093329-57093343 chr11:57093327-57093344 chr11:57093328-57093343 chr11:57093329-57093343 chr11:57093328-57093344 chr11:57093323-57093349
42	POLR2A	chr11:57091997-57093431	GM12878	blood:	n/a	n/a
43	RFX5	chr11:57092374-57093320	Hela-S3	cervix:	n/a	n/a
44	POLR2A	chr11:57090096-57093913	Hela-S3	cervix:	n/a	n/a
45	POLR2A	chr11:57092295-57093270	H1-hESC	embryonic stem cell:	n/a	n/a
46	CEBPB	chr11:57092436-57093346	IMR90	lung:	n/a	n/a
47	POLR2A	chr11:57092417-57093413	GM12878	blood:	n/a	n/a
48	TAF1	chr11:57092022-57093351	H1-hESC	embryonic stem cell:	n/a	n/a
49	EP300	chr11:57092279-57093301	ECC-1	luminal epithelium:	n/a	chr11:57092774-57092790
50	POLR2A	chr11:57091933-57093421	HepG2	liver:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr11:57091420..57094384-chr11:57190255..57192267,2	K562	blood:
2	chr11:57091726..57094053-chr11:57435298..57437706,2	K562	blood:
3	chr11:57092537..57094239-chr11:57192344..57194712,2	K562	blood:
4	chr11:57091125..57093687-chr11:57243997..57245679,2	MCF-7	breast:
5	chr11:57092687..57093324-chr7:135242342..135243244,2	NB4	blood:

Variant related genes	Relation type
TNKS1BP1	TF binding region
ENSG00000156599	Chromatin interaction
ENSG00000134802	Chromatin interaction
ENSG00000254979	Chromatin interaction
ENSG00000155561	Chromatin interaction
ENSG00000255301	Chromatin interaction

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10792086	0.92[ASN][1000 genomes]
rs10792088	0.92[ASN][1000 genomes]
rs10792089	0.92[ASN][1000 genomes]
rs10792091	1.00[ASN][1000 genomes]
rs10896598	0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10896603	0.92[ASN][1000 genomes]
rs10896604	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10896605	0.92[ASN][1000 genomes]
rs10896608	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11228991	0.81[EUR][1000 genomes]
rs11228995	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11228997	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11229003	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11229011	1.00[ASN][1000 genomes]
rs11602265	0.92[ASN][1000 genomes]
rs11602266	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11603691	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11606862	0.80[AMR][1000 genomes]
rs11607950	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12361969	0.82[ASN][1000 genomes]
rs12364724	0.80[AMR][1000 genomes]
rs12365472	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12576878	0.92[ASN][1000 genomes]
rs1815769	1.00[ASN][1000 genomes]
rs2230649	0.92[ASN][1000 genomes]
rs34135716	0.92[ASN][1000 genomes]
rs4938863	0.92[ASN][1000 genomes]
rs4938864	1.00[ASN][1000 genomes]
rs61888887	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61888888	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7106462	0.92[ASN][1000 genomes]
rs7111339	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7129491	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7951793	0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv915640	chr11:56814841-57139786	Weak transcription Transcr. at gene 5' and 3' Enhancers Genic enhancers Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
2	nsv1044030	chr11:57073395-58035564	Transcr. at gene 5' and 3' Weak transcription Flanking Active TSS Strong transcription Enhancers Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	136 gene(s)	inside rSNPs	diseases
3	nsv541047	chr11:57073395-58035564	Active TSS Enhancers Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	136 gene(s)	inside rSNPs	diseases
4	nsv541048	chr11:57076815-57120781	Flanking Active TSS Genic enhancers Active TSS Weak transcription Enhancers Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
5	esv3408359	chr11:57090901-57093749	Weak transcription Enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
6	esv3369727	chr11:57091026-57093624	Weak transcription Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:57089200-57093600	Active TSS	Aorta	Aorta
2	chr11:57089600-57093400	Active TSS	Pancreatic Islets	Pancreatic Islet
3	chr11:57090800-57093200	Active TSS	Sigmoid Colon	Sigmoid Colon
4	chr11:57091000-57093200	Active TSS	Gastric	stomach
5	chr11:57091000-57093200	Active TSS	Small Intestine	intestine
6	chr11:57091200-57093200	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr11:57091200-57093200	Active TSS	Breast Myoepithelial Primary Cells	Breast
8	chr11:57091200-57093200	Active TSS	Ovary	ovary
9	chr11:57091200-57093200	Active TSS	Psoas Muscle	Psoas
10	chr11:57091200-57093400	Active TSS	H9 Cell Line	embryonic stem cell
11	chr11:57091400-57093200	Active TSS	Fetal Brain Female	brain
12	chr11:57091600-57093200	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
13	chr11:57091600-57093200	Active TSS	Pancreas	Pancrea
14	chr11:57091800-57093200	Transcr. at gene 5' and 3'	Right Atrium	heart
15	chr11:57092600-57093200	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr11:57092600-57093400	Active TSS	ES-I3 Cell Line	embryonic stem cell
17	chr11:57092600-57093400	Flanking Active TSS	Muscle Satellite Cultured Cells	--
18	chr11:57092600-57093400	Flanking Active TSS	Primary mononuclear cells fromperipheralblood	Blood
19	chr11:57092600-57093400	Flanking Active TSS	NHLF	lung
20	chr11:57092600-57093600	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
21	chr11:57092600-57093600	Flanking Active TSS	HMEC	breast
22	chr11:57092800-57093200	Active TSS	ES-WA7 Cell Line	embryonic stem cell
23	chr11:57092800-57093200	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr11:57092800-57093200	Flanking Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
25	chr11:57092800-57093200	Flanking Active TSS	HUES64 Cell Line	embryonic stem cell
26	chr11:57092800-57093200	Flanking Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
27	chr11:57092800-57093200	Flanking Active TSS	Primary monocytes fromperipheralblood	blood
28	chr11:57092800-57093200	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
29	chr11:57092800-57093200	Flanking Active TSS	Primary T cells fromperipheralblood	blood
30	chr11:57092800-57093200	Flanking Active TSS	Brain Cingulate Gyrus	brain
31	chr11:57092800-57093200	Flanking Active TSS	Fetal Brain Male	brain
32	chr11:57092800-57093200	Flanking Active TSS	A549	lung
33	chr11:57092800-57093200	Flanking Bivalent TSS/Enh	HepG2	liver
34	chr11:57092800-57093400	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell
35	chr11:57092800-57093400	Transcr. at gene 5' and 3'	HUES6 Cell Line	embryonic stem cell
36	chr11:57092800-57093400	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
37	chr11:57092800-57093400	Flanking Active TSS	Primary B cells from cord blood	blood
38	chr11:57092800-57093400	Flanking Active TSS	Primary B cells from peripheral blood	blood
39	chr11:57092800-57093400	Flanking Active TSS	Primary hematopoietic stem cells	blood
40	chr11:57092800-57093400	Flanking Active TSS	Primary Natural Killer cells fromperipheralblood	blood
41	chr11:57092800-57093400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
42	chr11:57092800-57093400	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
43	chr11:57092800-57093400	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
44	chr11:57092800-57093400	Flanking Active TSS	Liver	Liver
45	chr11:57092800-57093400	Flanking Active TSS	Duodenum Mucosa	Duodenum
46	chr11:57092800-57093400	Flanking Active TSS	Fetal Lung	lung
47	chr11:57092800-57093400	Flanking Active TSS	Fetal Muscle Trunk	muscle
48	chr11:57092800-57093400	Flanking Active TSS	Fetal Muscle Leg	muscle
49	chr11:57092800-57093400	Flanking Active TSS	Placenta	Placenta
50	chr11:57092800-57093400	Flanking Active TSS	Fetal Thymus	thymus

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links