Variant report

Variant	rs11553590
Chromosome Location	chr12:10525209-10525210
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs1154831	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs17548983	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2617164	0.96[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs2617167	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2734562	0.96[AFR][1000 genomes];0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv898757	chr12:10229281-10614641	Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	48 gene(s)	inside rSNPs	diseases
2	nsv832328	chr12:10398071-10620443	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
3	nsv898759	chr12:10454556-10583365	Enhancers Weak transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
4	esv3432683	chr12:10470734-10527581	Genic enhancers Flanking Active TSS Weak transcription Active TSS Enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
5	nsv898760	chr12:10492982-10564329	Genic enhancers Flanking Active TSS Enhancers Active TSS Weak transcription ZNF genes & repeats Strong transcription Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
6	nsv898761	chr12:10496724-10564329	Weak transcription Flanking Active TSS Bivalent Enhancer Enhancers Strong transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
7	nsv1036390	chr12:10496724-10596720	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
8	nsv557455	chr12:10508975-10560957	Flanking Active TSS Weak transcription Genic enhancers Enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
9	nsv898762	chr12:10509383-10564329	Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
10	nsv898763	chr12:10514528-10603670	Genic enhancers Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:77 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:10518400-10537000	Weak transcription	Left Ventricle	heart
2	chr12:10518600-10526600	Enhancers	Primary T killer memory cells from peripheral blood	blood
3	chr12:10518800-10527400	Genic enhancers	Primary Natural Killer cells fromperipheralblood	blood
4	chr12:10519200-10525400	Weak transcription	Aorta	Aorta
5	chr12:10519600-10534800	Weak transcription	Fetal Stomach	stomach
6	chr12:10519600-10547800	Weak transcription	Colon Smooth Muscle	Colon
7	chr12:10521200-10531000	Weak transcription	Placenta	Placenta
8	chr12:10521800-10526400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr12:10521800-10534600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr12:10522200-10525600	Genic enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr12:10522400-10530200	Weak transcription	Fetal Thymus	thymus
12	chr12:10522400-10534000	Weak transcription	Thymus	Thymus
13	chr12:10523000-10536000	Weak transcription	Ovary	ovary
14	chr12:10523200-10525800	Enhancers	iPS-15b Cell Line	embryonic stem cell
15	chr12:10523400-10525800	Genic enhancers	Primary T helper naive cells from peripheral blood	blood
16	chr12:10523400-10525800	Enhancers	HUVEC	blood vessel
17	chr12:10523400-10527400	Enhancers	Primary monocytes fromperipheralblood	blood
18	chr12:10523600-10525600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr12:10523600-10532000	Genic enhancers	Primary T killer naive cells fromperipheralblood	blood
20	chr12:10523800-10525400	Enhancers	HMEC	breast
21	chr12:10523800-10525800	Enhancers	Primary B cells from cord blood	blood
22	chr12:10523800-10526000	Enhancers	HUES64 Cell Line	embryonic stem cell
23	chr12:10524000-10525400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
24	chr12:10524000-10525400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
25	chr12:10524000-10525600	Enhancers	Primary hematopoietic stem cells short term culture	blood
26	chr12:10524000-10525800	Enhancers	NHEK	skin
27	chr12:10524200-10525400	Weak transcription	HUES48 Cell Line	embryonic stem cell
28	chr12:10524400-10525800	Enhancers	ES-I3 Cell Line	embryonic stem cell
29	chr12:10524400-10528200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
30	chr12:10524600-10525400	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
31	chr12:10524600-10525600	Genic enhancers	Primary T cells fromperipheralblood	blood
32	chr12:10524600-10525600	Enhancers	Stomach Mucosa	stomach
33	chr12:10524600-10525800	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
34	chr12:10524800-10525600	Flanking Active TSS	A549	lung
35	chr12:10524800-10525600	Enhancers	K562	blood
36	chr12:10524800-10525800	Enhancers	Brain Hippocampus Middle	brain
37	chr12:10525000-10525600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
38	chr12:10525000-10525600	Enhancers	Primary hematopoietic stem cells	blood
39	chr12:10525000-10525600	Enhancers	Primary T helper cells fromperipheralblood	blood
40	chr12:10525000-10525600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
41	chr12:10525000-10525600	Enhancers	Brain Inferior Temporal Lobe	brain
42	chr12:10525000-10525600	Enhancers	Fetal Intestine Large	intestine
43	chr12:10525000-10525600	Enhancers	Pancreas	Pancrea
44	chr12:10525000-10525800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
45	chr12:10525000-10525800	Enhancers	Adipose Nuclei	Adipose
46	chr12:10525000-10525800	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
47	chr12:10525000-10525800	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
48	chr12:10525000-10525800	Genic enhancers	Hela-S3	cervix
49	chr12:10525000-10526000	Genic enhancers	Primary T cells from cord blood	blood
50	chr12:10525000-10526400	Enhancers	Brain Anterior Caudate	brain

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