Variant report

Variant	rs11228889
Chromosome Location	chr11:55026160-55026161
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:49)
CpG islands
(count:0)
Chromatin interactive
region (count:0)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:49 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	ZBTB33	chr11:55026096-55026264	HepG2	liver:	n/a	n/a
2	SIX5	chr11:55026082-55026593	K562	blood:	n/a	n/a
3	SP1	chr11:55025946-55026648	GM12878	blood:	n/a	n/a
4	POU2F2	chr11:55026088-55026531	GM12878	blood:	n/a	n/a
5	PAX5	chr11:55026078-55026683	GM12878	blood:	n/a	n/a
6	BCL11A	chr11:55025996-55026628	GM12878	blood:	n/a	n/a
7	SIX5	chr11:55025999-55026595	K562	blood:	n/a	n/a
8	RXRA	chr11:55026088-55026596	GM12878	blood:	n/a	n/a
9	HEY1	chr11:55026084-55026507	HepG2	liver:	n/a	n/a
10	ZBTB33	chr11:55025977-55026604	GM12878	blood:	n/a	n/a
11	PAX5	chr11:55026109-55026550	GM12878	blood:	n/a	n/a
12	RXRA	chr11:55026101-55026569	HepG2	liver:	n/a	n/a
13	FOXA1	chr11:55026132-55026695	HepG2	liver:	n/a	n/a
14	FOSL2	chr11:55025997-55026588	HepG2	liver:	n/a	n/a
15	BCL11A	chr11:55026097-55026292	GM12878	blood:	n/a	n/a
16	EBF1	chr11:55026005-55026495	GM12878	blood:	n/a	n/a
17	SIN3AK20	chr11:55026110-55026293	HepG2	liver:	n/a	n/a
18	POLR2A	chr11:55026086-55026547	Hela-S3	cervix:	n/a	n/a
19	SP1	chr11:55026037-55026516	HepG2	liver:	n/a	n/a
20	TAF1	chr11:55026105-55026570	Hela-S3	cervix:	n/a	n/a
21	GABPA	chr11:55026000-55026600	Hela-S3	cervix:	n/a	n/a
22	ZBTB33	chr11:55026097-55026572	K562	blood:	n/a	n/a
23	JUND	chr11:55026148-55026246	HepG2	liver:	n/a	n/a
24	USF1	chr11:55026079-55026539	HepG2	liver:	n/a	n/a
25	JUND	chr11:55026084-55026290	HepG2	liver:	n/a	n/a
26	EBF1	chr11:55026013-55026576	GM12878	blood:	n/a	n/a
27	TCF12	chr11:55026123-55026564	HepG2	liver:	n/a	n/a
28	FOSL2	chr11:55025967-55026700	HepG2	liver:	n/a	n/a
29	POU2F2	chr11:55025445-55026608	GM12878	blood:	n/a	n/a
30	SP1	chr11:55026138-55026682	H1-hESC	embryonic stem cell:	n/a	n/a
31	SPI1	chr11:55026120-55026558	GM12878	blood:	n/a	n/a
32	IRF4	chr11:55025452-55026691	GM12878	blood:	n/a	n/a
33	HEY1	chr11:55026079-55026567	K562	blood:	n/a	n/a
34	ZBTB33	chr11:55025989-55026594	GM12878	blood:	n/a	n/a
35	SIX5	chr11:55025986-55026588	GM12878	blood:	n/a	n/a
36	EP300	chr11:55025967-55026639	GM12878	blood:	n/a	n/a
37	BATF	chr11:55026006-55026557	GM12878	blood:	n/a	n/a
38	ZBTB33	chr11:55025989-55026600	HepG2	liver:	n/a	n/a
39	SP1	chr11:55026139-55026251	HepG2	liver:	n/a	n/a
40	IRF4	chr11:55025474-55026707	GM12878	blood:	n/a	n/a
41	RXRA	chr11:55025331-55026768	HepG2	liver:	n/a	n/a
42	SIN3AK20	chr11:55026013-55026316	HepG2	liver:	n/a	n/a
43	USF1	chr11:55026081-55026287	HepG2	liver:	n/a	n/a
44	EP300	chr11:55026123-55026288	GM12878	blood:	n/a	n/a
45	SPI1	chr11:55025485-55026725	GM12878	blood:	n/a	n/a
46	BHLHE40	chr11:55025977-55026505	HepG2	liver:	n/a	n/a
47	GABPA	chr11:55026150-55026285	Hela-S3	cervix:	n/a	n/a
48	POLR2A	chr11:55025972-55026561	H1-hESC	embryonic stem cell:	n/a	n/a
49	TCF12	chr11:55026132-55026314	GM12878	blood:	n/a	n/a

No data

Variant related genes	Relation type
TRIM48	TF binding region

Extended variants
information (count: 42 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:1)

rs_ID	r²[population]
rs10750871	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.92[JPT][hapmap];0.91[LWK][hapmap];0.93[MEX][hapmap];0.93[MKK][hapmap];0.97[TSI][hapmap];0.86[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:41 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv12589	chr11:54694268-55028303	ZNF genes & repeats Flanking Bivalent TSS/Enh Weak transcription Active TSS Enhancers Bivalent/Poised TSS Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
2	nsv821285	chr11:54694268-55028303	ZNF genes & repeats Weak transcription Flanking Bivalent TSS/Enh Enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv554615	chr11:54695707-55026646	ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Weak transcription Active TSS Bivalent/Poised TSS Enhancers Bivalent Enhancer	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	nsv554616	chr11:54695707-55038478	ZNF genes & repeats Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv554617	chr11:54695707-55058198	ZNF genes & repeats Active TSS Bivalent/Poised TSS Weak transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	nsv554618	chr11:54695707-55111584	ZNF genes & repeats Active TSS Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
7	esv2830215	chr11:54711990-55340379	ZNF genes & repeats Flanking Bivalent TSS/Enh Enhancers Weak transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
8	nsv1039476	chr11:54720811-55036460	ZNF genes & repeats Bivalent Enhancer Weak transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
9	nsv1044556	chr11:54720811-55039790	ZNF genes & repeats Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Enhancers Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
10	nsv1048711	chr11:54720811-55048272	ZNF genes & repeats Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
11	nsv1045259	chr11:54720811-55051462	ZNF genes & repeats Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Enhancers Active TSS Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
12	nsv1052399	chr11:54720811-55060520	ZNF genes & repeats Enhancers Flanking Bivalent TSS/Enh Weak transcription Active TSS Bivalent/Poised TSS Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
13	nsv1048402	chr11:54720811-55148163	Active TSS ZNF genes & repeats Weak transcription Bivalent/Poised TSS Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
14	nsv1039155	chr11:54720811-55156607	ZNF genes & repeats Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Enhancers Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
15	nsv1042875	chr11:54720811-55191418	ZNF genes & repeats Active TSS Enhancers Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
16	nsv1038336	chr11:54720811-55213281	ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS Enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
17	nsv1052144	chr11:54720811-55438474	ZNF genes & repeats Active TSS Weak transcription Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
18	nsv1050392	chr11:54773881-55039790	ZNF genes & repeats Bivalent/Poised TSS Weak transcription Strong transcription Enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
19	nsv1053949	chr11:54773881-55363328	ZNF genes & repeats Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
20	nsv554662	chr11:54776794-55103617	Enhancers ZNF genes & repeats Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
21	nsv1051643	chr11:54826801-55363328	ZNF genes & repeats Flanking Bivalent TSS/Enh Weak transcription Enhancers Bivalent/Poised TSS Bivalent Enhancer Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
22	nsv508631	chr11:54842784-55030660	ZNF genes & repeats Strong transcription Weak transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
23	esv2829951	chr11:54871258-55035411	ZNF genes & repeats Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Enhancers Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
24	nsv524091	chr11:54875038-55522549	Weak transcription ZNF genes & repeats Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
25	nsv554701	chr11:54887634-55026646	Weak transcription Bivalent Enhancer Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Strong transcription	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
26	nsv1039779	chr11:54891270-55036460	ZNF genes & repeats Flanking Bivalent TSS/Enh Weak transcription Active TSS Bivalent Enhancer Enhancers Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
27	nsv554720	chr11:54891793-55026646	ZNF genes & repeats Weak transcription Flanking Bivalent TSS/Enh Enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
28	nsv1046755	chr11:54897485-55036460	Weak transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Enhancers Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
29	nsv427887	chr11:54900406-55088042	ZNF genes & repeats Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Enhancers Active TSS Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
30	nsv554731	chr11:54934563-55028309	ZNF genes & repeats Weak transcription Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
31	nsv554739	chr11:54943575-55028309	ZNF genes & repeats Weak transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS Enhancers Strong transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
32	nsv554740	chr11:54943575-55028423	Weak transcription ZNF genes & repeats Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
33	nsv554754	chr11:54958853-55026160	ZNF genes & repeats Weak transcription Enhancers Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region	1 gene(s)	inside rSNPs	diseases
34	nsv554763	chr11:54959435-55026160	Bivalent Enhancer ZNF genes & repeats Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Strong transcription	TF binding region	1 gene(s)	inside rSNPs	diseases
35	nsv554764	chr11:54959435-55026646	ZNF genes & repeats Weak transcription Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Strong transcription	TF binding region	1 gene(s)	inside rSNPs	diseases
36	nsv554765	chr11:54959435-55027673	ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Weak transcription Active TSS Bivalent Enhancer Enhancers Strong transcription	TF binding region	1 gene(s)	inside rSNPs	diseases
37	nsv511469	chr11:54961685-55026160	Weak transcription ZNF genes & repeats Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer	TF binding region	1 gene(s)	inside rSNPs	diseases
38	esv3584640	chr11:54965608-55036472	ZNF genes & repeats Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Enhancers Active TSS Strong transcription	TF binding region CpG island lncRNA	2 gene(s)	inside rSNPs	diseases
39	nsv442616	chr11:54965608-55036472	ZNF genes & repeats Flanking Bivalent TSS/Enh Weak transcription Active TSS Enhancers Bivalent/Poised TSS Bivalent Enhancer Strong transcription	TF binding region CpG island lncRNA	2 gene(s)	inside rSNPs	diseases
40	esv2421639	chr11:54968666-55036472	Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Enhancers Strong transcription Bivalent/Poised TSS	TF binding region CpG island lncRNA	2 gene(s)	inside rSNPs	diseases
41	nsv832152	chr11:54990462-55082131	ZNF genes & repeats Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Enhancers Bivalent/Poised TSS Strong transcription	TF binding region CpG island lncRNA	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs11228889	OR5AK2	cis	cerebellum	SCAN
rs11228889	OR4P4	cis	cerebellum	SCAN
rs11228889	SSRP1	cis	cerebellum	SCAN
rs11228889	OR5L1	cis	parietal	SCAN

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:55006200-55026600	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
2	chr11:55006200-55027600	ZNF genes & repeats	HUES48 Cell Line	embryonic stem cell
3	chr11:55007000-55027000	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
4	chr11:55015000-55026600	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr11:55015000-55026600	ZNF genes & repeats	iPS-18 Cell Line	embryonic stem cell
6	chr11:55015600-55026200	Weak transcription	NHEK	skin
7	chr11:55015600-55026200	Weak transcription	NHLF	lung
8	chr11:55023800-55026200	Weak transcription	Fetal Heart	heart
9	chr11:55024400-55026200	Weak transcription	Osteobl	bone
10	chr11:55025200-55026200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr11:55025400-55026200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr11:55025600-55026600	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
13	chr11:55025600-55026600	ZNF genes & repeats	Primary T cells from cord blood	blood
14	chr11:55025600-55026600	ZNF genes & repeats	Primary T helper 17 cells PMA-I stimulated	--
15	chr11:55025600-55026600	ZNF genes & repeats	Hela-S3	cervix
16	chr11:55025600-55026600	ZNF genes & repeats	HSMMtube	muscle
17	chr11:55025600-55026600	ZNF genes & repeats	HUVEC	blood vessel
18	chr11:55025600-55026600	ZNF genes & repeats	K562	blood
19	chr11:55025600-55026600	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
20	chr11:55025600-55026600	ZNF genes & repeats	NH-A	brain
21	chr11:55025800-55026600	ZNF genes & repeats	ES-I3 Cell Line	embryonic stem cell
22	chr11:55025800-55026600	ZNF genes & repeats	H9 Cell Line	embryonic stem cell
23	chr11:55025800-55026600	ZNF genes & repeats	Left Ventricle	heart
24	chr11:55026000-55026600	ZNF genes & repeats	H1 Cell Line	embryonic stem cell
25	chr11:55026000-55026600	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
26	chr11:55026000-55026600	ZNF genes & repeats	iPS-15b Cell Line	embryonic stem cell
27	chr11:55026000-55026600	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr11:55026000-55026600	ZNF genes & repeats	Primary hematopoietic stem cells	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links