Variant report

Variant	rs55959510
Chromosome Location	chr11:9764595-9764596
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 59 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs1056593	0.85[ASN][1000 genomes]
rs1056674	0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs11821544	0.85[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs11821692	0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs11825952	0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs11828354	0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs1496475	0.92[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs1532422	0.92[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs16906967	0.92[AMR][1000 genomes]
rs1845884	0.92[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs28607967	0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs2878800	0.92[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs3197265	0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs34696762	0.92[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs3817010	0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs56029305	0.88[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs56340721	0.88[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs57070018	0.92[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs57590863	0.92[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs57650149	0.92[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs57843161	0.89[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs57864531	0.92[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs58073079	0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs58217715	0.92[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs58765157	0.92[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs59070186	0.89[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs60195226	0.88[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs60544361	0.92[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs60548107	0.81[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs60601382	0.92[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs60929104	0.92[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs61059316	0.92[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs61284089	0.92[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs61469272	0.92[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs6483649	0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs6483650	0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs6483651	0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs6483654	0.92[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs6483655	0.92[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs6483657	0.92[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs6483658	0.92[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs7113055	0.92[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs7114514	0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs7928407	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs7935267	0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs7939896	0.92[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs7940708	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs7940826	0.92[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs7946920	0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs7949343	0.85[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs7950075	0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs868860	0.89[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs868861	0.89[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs868862	0.92[AMR][1000 genomes];0.87[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	nsv933855	chr11:9645441-10130519	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv1053369	chr11:9647837-9876054	Genic enhancers Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Weak transcription Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
3	nsv553468	chr11:9667828-9827871	Weak transcription Genic enhancers Active TSS Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
4	nsv1045550	chr11:9718324-9790088	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
5	nsv896987	chr11:9759918-9885849	Strong transcription Enhancers Genic enhancers Flanking Active TSS Weak transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:114 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:9742200-9779400	Weak transcription	Fetal Brain Male	brain
2	chr11:9745000-9775600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr11:9755000-9777600	Weak transcription	Colonic Mucosa	Colon
4	chr11:9755400-9769800	Weak transcription	Pancreas	Pancrea
5	chr11:9757400-9764600	Strong transcription	Cortex derived primary cultured neurospheres	brain
6	chr11:9757400-9766400	Weak transcription	Rectal Mucosa Donor 31	rectum
7	chr11:9757400-9769200	Weak transcription	Rectal Smooth Muscle	rectum
8	chr11:9757600-9774600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr11:9758400-9769800	Weak transcription	Primary T cells fromperipheralblood	blood
10	chr11:9758400-9769800	Weak transcription	Stomach Mucosa	stomach
11	chr11:9758800-9769800	Weak transcription	Brain Anterior Caudate	brain
12	chr11:9758800-9776000	Weak transcription	Brain Germinal Matrix	brain
13	chr11:9759200-9769400	Weak transcription	Primary T helper cells fromperipheralblood	blood
14	chr11:9760600-9769800	Weak transcription	Fetal Heart	heart
15	chr11:9761000-9769400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
16	chr11:9761000-9777200	Weak transcription	Fetal Kidney	kidney
17	chr11:9761800-9766000	Weak transcription	Primary hematopoietic stem cells	blood
18	chr11:9761800-9772200	Weak transcription	Skeletal Muscle Female	skeletal muscle
19	chr11:9762200-9769400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
20	chr11:9762200-9769400	Weak transcription	Ovary	ovary
21	chr11:9762200-9771600	Weak transcription	Aorta	Aorta
22	chr11:9762400-9767200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
23	chr11:9762400-9769200	Weak transcription	Skeletal Muscle Male	skeletal muscle
24	chr11:9762400-9769800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
25	chr11:9762400-9772000	Weak transcription	Gastric	stomach
26	chr11:9762400-9777200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
27	chr11:9762400-9777400	Weak transcription	Esophagus	oesophagus
28	chr11:9762400-9777400	Weak transcription	Right Ventricle	heart
29	chr11:9762400-9779400	Weak transcription	Liver	Liver
30	chr11:9762400-9779400	Weak transcription	Psoas Muscle	Psoas
31	chr11:9762600-9767200	Weak transcription	Brain Inferior Temporal Lobe	brain
32	chr11:9762600-9769000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
33	chr11:9762600-9769200	Weak transcription	Duodenum Mucosa	Duodenum
34	chr11:9762600-9769800	Weak transcription	Brain Angular Gyrus	brain
35	chr11:9762600-9769800	Weak transcription	Brain Cingulate Gyrus	brain
36	chr11:9762600-9769800	Weak transcription	Brain Hippocampus Middle	brain
37	chr11:9762600-9779200	Weak transcription	Primary neutrophils fromperipheralblood	blood
38	chr11:9762800-9764600	Strong transcription	Primary B cells from peripheral blood	blood
39	chr11:9762800-9769800	Weak transcription	Placenta Amnion	Placenta Amnion
40	chr11:9762800-9779400	Weak transcription	Fetal Brain Female	brain
41	chr11:9763000-9769800	Weak transcription	Brain Substantia Nigra	brain
42	chr11:9763000-9770000	Weak transcription	Small Intestine	intestine
43	chr11:9763200-9766600	Weak transcription	Stomach Smooth Muscle	stomach
44	chr11:9763200-9767400	Weak transcription	Fetal Thymus	thymus
45	chr11:9763200-9768800	Weak transcription	Hela-S3	cervix
46	chr11:9763200-9769400	Weak transcription	Fetal Muscle Trunk	muscle
47	chr11:9763200-9773600	Weak transcription	HepG2	liver
48	chr11:9763200-9775200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
49	chr11:9763400-9764600	Strong transcription	A549	lung
50	chr11:9763400-9765800	Weak transcription	HSMM	muscle

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