Variant report

Variant	rs11603206
Chromosome Location	chr11:65556286-65556287
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:2)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:2 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	SIN3AK20	chr11:65553765-65556882	MCF-7	breast:	n/a	n/a
2	NR2F2	chr11:65555413-65556639	MCF-7	breast:	n/a	chr11:65555975-65555990

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr11:65544951..65562337-chr11:65623093..65630859,34	MCF-7	breast:
2	chr11:65556129..65558020-chr11:65687401..65689807,2	MCF-7	breast:
3	chr11:65381719..65383349-chr11:65554196..65557028,2	MCF-7	breast:
4	chr11:65553824..65556845-chr11:65623477..65626342,3	K562	blood:
5	chr11:65479523..65484500-chr11:65551483..65556601,5	MCF-7	breast:
6	chr11:65552282..65556398-chr11:65623209..65626538,5	MCF-7	breast:
7	chr11:65545987..65548666-chr11:65554230..65557097,2	K562	blood:
8	chr11:65546169..65552016-chr11:65555022..65558350,9	K562	blood:

No data

Variant related genes	Relation type
OVOL1	TF binding region
ENSG00000254470	Chromatin interaction
ENSG00000173327	Chromatin interaction
ENSG00000175827	Chromatin interaction
ENSG00000172732	Chromatin interaction
ENSG00000172757	Chromatin interaction
ENSG00000175550	Chromatin interaction
ENSG00000197136	Chromatin interaction
ENSG00000172977	Chromatin interaction

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs11600035	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12802560	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2277304	0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34509162	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs36008241	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs491666	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs501337	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs523521	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs530405	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs553980	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs554863	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs56164300	0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs561924	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs601683	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs604949	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67901563	0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67995174	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71197355	0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv897718	chr11:65140209-65577516	Enhancers Active TSS Flanking Active TSS Weak transcription Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	1003 gene(s)	inside rSNPs	diseases
2	nsv897736	chr11:65335705-65676516	Flanking Active TSS Active TSS Enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	227 gene(s)	inside rSNPs	diseases
3	nsv430401	chr11:65419324-65788024	Enhancers Weak transcription Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	224 gene(s)	inside rSNPs	diseases
4	nsv897758	chr11:65490756-65564035	Flanking Bivalent TSS/Enh Active TSS Weak transcription Genic enhancers Enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
5	nsv897760	chr11:65545306-65559266	Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:57 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:65553400-65556400	Bivalent Enhancer	Spleen	Spleen
2	chr11:65553400-65557200	Bivalent/Poised TSS	Rectal Smooth Muscle	rectum
3	chr11:65554400-65556800	Bivalent/Poised TSS	Duodenum Smooth Muscle	Duodenum
4	chr11:65554600-65556400	Bivalent/Poised TSS	Duodenum Mucosa	Duodenum
5	chr11:65554800-65556600	Bivalent Enhancer	Primary hematopoietic stem cells	blood
6	chr11:65555200-65556400	Flanking Bivalent TSS/Enh	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr11:65555200-65556400	Bivalent Enhancer	Fetal Lung	lung
8	chr11:65555200-65556600	Flanking Bivalent TSS/Enh	Placenta	Placenta
9	chr11:65555400-65556400	Bivalent Enhancer	Primary T helper naive cells from peripheral blood	blood
10	chr11:65555400-65556400	Flanking Bivalent TSS/Enh	Stomach Mucosa	stomach
11	chr11:65555400-65556400	Flanking Bivalent TSS/Enh	HepG2	liver
12	chr11:65555600-65556400	Flanking Bivalent TSS/Enh	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr11:65555600-65556400	Bivalent Enhancer	Primary Natural Killer cells fromperipheralblood	blood
14	chr11:65555600-65556400	Bivalent Enhancer	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr11:65555600-65556600	Bivalent Enhancer	Foreskin Melanocyte Primary Cells skin01	Skin
16	chr11:65555600-65556600	Bivalent Enhancer	Fetal Muscle Trunk	muscle
17	chr11:65555600-65557200	Transcr. at gene 5' and 3'	Esophagus	oesophagus
18	chr11:65555800-65556400	Bivalent Enhancer	Primary B cells from peripheral blood	blood
19	chr11:65555800-65556400	Bivalent Enhancer	Thymus	Thymus
20	chr11:65555800-65556600	Bivalent Enhancer	Primary hematopoietic stem cells short term culture	blood
21	chr11:65555800-65556600	Bivalent Enhancer	Fetal Thymus	thymus
22	chr11:65555800-65556600	Bivalent/Poised TSS	Small Intestine	intestine
23	chr11:65555800-65556800	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Female	--
24	chr11:65555800-65556800	Active TSS	Fetal Kidney	kidney
25	chr11:65555800-65557000	Bivalent Enhancer	GM12878-XiMat	blood
26	chr11:65555800-65558200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
27	chr11:65555800-65558800	Weak transcription	Right Atrium	heart
28	chr11:65555800-65562000	Enhancers	HMEC	breast
29	chr11:65556000-65556400	Bivalent Enhancer	ES-WA7 Cell Line	embryonic stem cell
30	chr11:65556000-65556400	Flanking Bivalent TSS/Enh	HUES6 Cell Line	embryonic stem cell
31	chr11:65556000-65556400	Flanking Bivalent TSS/Enh	HUES64 Cell Line	embryonic stem cell
32	chr11:65556000-65556400	Flanking Bivalent TSS/Enh	iPS-18 Cell Line	embryonic stem cell
33	chr11:65556000-65556400	Flanking Bivalent TSS/Enh	iPS-20b Cell Line	embryonic stem cell
34	chr11:65556000-65556400	Bivalent Enhancer	Primary T helper cells PMA-I stimulated	--
35	chr11:65556000-65556600	Flanking Active TSS	iPS-15b Cell Line	embryonic stem cell
36	chr11:65556000-65556600	Bivalent/Poised TSS	Fetal Stomach	stomach
37	chr11:65556000-65556600	Flanking Bivalent TSS/Enh	Rectal Mucosa Donor 31	rectum
38	chr11:65556000-65558200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
39	chr11:65556000-65558600	Enhancers	Gastric	stomach
40	chr11:65556000-65558800	Weak transcription	Lung	lung
41	chr11:65556000-65559400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
42	chr11:65556000-65562000	Enhancers	Breast Myoepithelial Primary Cells	Breast
43	chr11:65556200-65556400	Enhancers	H9 Cell Line	embryonic stem cell
44	chr11:65556200-65556400	Bivalent Enhancer	Primary T helper naive cells fromperipheralblood	blood
45	chr11:65556200-65556400	Bivalent/Poised TSS	Stomach Smooth Muscle	stomach
46	chr11:65556200-65556400	Enhancers	K562	blood
47	chr11:65556200-65556600	Bivalent Enhancer	H1 Cell Line	embryonic stem cell
48	chr11:65556200-65556600	Bivalent Enhancer	Foreskin Keratinocyte Primary Cells skin02	Skin
49	chr11:65556200-65556800	Flanking Bivalent TSS/Enh	Fetal Intestine Large	intestine
50	chr11:65556200-65557000	Bivalent/Poised TSS	Foreskin Keratinocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links