Variant report

Variant	rs11821197
Chromosome Location	chr11:66556555-66556556
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:66510242..66514990-chr11:66554599..66560135,5	MCF-7	breast:
2	chr11:66491621..66493152-chr11:66556144..66557644,2	MCF-7	breast:
3	chr11:66548712..66551794-chr11:66555818..66557613,3	MCF-7	breast:
4	chr11:66510377..66514075-chr11:66555524..66560274,6	MCF-7	breast:

Variant related genes	Relation type
ENSG00000173715	Chromatin interaction

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs11821548	1.00[AMR][1000 genomes]
rs11822858	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11823149	1.00[AMR][1000 genomes]
rs11823180	1.00[AMR][1000 genomes]
rs11823888	1.00[ASW][hapmap];0.82[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs11825713	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11825882	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11827300	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11828258	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11828658	0.82[AFR][1000 genomes]
rs2511007	1.00[MKK][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs34275473	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6591224	1.00[AMR][1000 genomes]
rs7104885	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7104906	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7105623	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7110020	1.00[ASW][hapmap];1.00[MKK][hapmap];1.00[AMR][1000 genomes]
rs7114229	1.00[ASW][hapmap];1.00[MKK][hapmap];1.00[AMR][1000 genomes]
rs7118311	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7120487	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7120560	1.00[MKK][hapmap]
rs7121308	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7128335	1.00[AMR][1000 genomes]
rs7131531	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7925899	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7929435	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7940057	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7946173	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7951710	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9666734	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]

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	nsv897789	chr11:66372390-66634397	Weak transcription Enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	117 gene(s)	inside rSNPs	diseases
2	nsv897790	chr11:66414915-66626234	Transcr. at gene 5' and 3' Strong transcription Weak transcription Active TSS Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	75 gene(s)	inside rSNPs	diseases
3	nsv427891	chr11:66456140-66606701	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	36 gene(s)	inside rSNPs	diseases
4	nsv468602	chr11:66468469-66634397	Enhancers Active TSS Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	70 gene(s)	inside rSNPs	diseases
5	nsv555225	chr11:66468469-66634397	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	70 gene(s)	inside rSNPs	diseases
6	nsv516087	chr11:66516049-66579572	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
7	nsv508638	chr11:66541653-66643634	Strong transcription Enhancers Active TSS Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:54 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:66513400-66606800	Weak transcription	Brain Angular Gyrus	brain
2	chr11:66527000-66574200	Weak transcription	Primary T helper cells fromperipheralblood	blood
3	chr11:66527000-66595600	Weak transcription	HSMM	muscle
4	chr11:66527400-66571600	Weak transcription	Primary T cells from cord blood	blood
5	chr11:66530000-66559000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
6	chr11:66530000-66571400	Weak transcription	Fetal Muscle Trunk	muscle
7	chr11:66530000-66605400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr11:66530200-66582400	Weak transcription	HUVEC	blood vessel
9	chr11:66530600-66575200	Weak transcription	Esophagus	oesophagus
10	chr11:66530600-66600000	Weak transcription	Fetal Muscle Leg	muscle
11	chr11:66530800-66581800	Weak transcription	Sigmoid Colon	Sigmoid Colon
12	chr11:66531000-66572800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
13	chr11:66531200-66577800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
14	chr11:66531400-66557000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr11:66531400-66578000	Weak transcription	Cortex derived primary cultured neurospheres	brain
16	chr11:66531800-66569400	Weak transcription	Brain Germinal Matrix	brain
17	chr11:66532000-66568400	Weak transcription	HUES48 Cell Line	embryonic stem cell
18	chr11:66536600-66572000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr11:66536800-66558200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
20	chr11:66538200-66575800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
21	chr11:66539800-66571400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr11:66544000-66609600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
23	chr11:66548400-66571400	Weak transcription	Brain Inferior Temporal Lobe	brain
24	chr11:66548800-66557800	Weak transcription	Pancreatic Islets	Pancreatic Islet
25	chr11:66550400-66571400	Weak transcription	Fetal Brain Female	brain
26	chr11:66554600-66605800	Weak transcription	Placenta Amnion	Placenta Amnion
27	chr11:66554800-66568000	Weak transcription	Primary hematopoietic stem cells	blood
28	chr11:66555000-66556600	Enhancers	Small Intestine	intestine
29	chr11:66555200-66556800	Enhancers	Stomach Smooth Muscle	stomach
30	chr11:66555400-66556600	Enhancers	Duodenum Smooth Muscle	Duodenum
31	chr11:66555400-66556800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
32	chr11:66555400-66556800	Enhancers	A549	lung
33	chr11:66555400-66557200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr11:66555400-66557400	Strong transcription	HUES64 Cell Line	embryonic stem cell
35	chr11:66555600-66557200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
36	chr11:66555600-66557400	Strong transcription	Fetal Thymus	thymus
37	chr11:66555600-66558000	Enhancers	Hela-S3	cervix
38	chr11:66555600-66558400	Strong transcription	Primary B cells from peripheral blood	blood
39	chr11:66555600-66559400	Enhancers	Fetal Intestine Large	intestine
40	chr11:66555800-66556600	Enhancers	Fetal Stomach	stomach
41	chr11:66555800-66556800	Enhancers	Fetal Lung	lung
42	chr11:66555800-66559000	Enhancers	Fetal Intestine Small	intestine
43	chr11:66556000-66556600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
44	chr11:66556000-66556600	Enhancers	Placenta	Placenta
45	chr11:66556000-66556600	Enhancers	Gastric	stomach
46	chr11:66556000-66557200	Strong transcription	NHEK	skin
47	chr11:66556000-66558000	Enhancers	Duodenum Mucosa	Duodenum
48	chr11:66556200-66556600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
49	chr11:66556200-66557000	Strong transcription	Thymus	Thymus
50	chr11:66556200-66577600	Weak transcription	ES-I3 Cell Line	embryonic stem cell

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