Variant report

Variant	rs12520210
Chromosome Location	chr5:9435305-9435306
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs10041870	1.00[CEU][hapmap];0.82[CHB][hapmap];0.91[JPT][hapmap];0.89[YRI][hapmap];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12520208	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13174956	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.82[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17258493	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2135074	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3846587	0.82[CHB][hapmap];0.86[JPT][hapmap]
rs4701846	0.96[CEU][hapmap];0.95[MEX][hapmap];0.81[YRI][hapmap];0.89[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4702626	1.00[CEU][hapmap];0.91[JPT][hapmap];0.89[YRI][hapmap];0.80[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6873574	0.95[CHB][hapmap];0.91[JPT][hapmap];0.86[ASN][1000 genomes]
rs6887921	0.90[CEU][hapmap];0.86[JPT][hapmap]
rs979581	0.86[CHB][hapmap];0.86[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:16 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv881438	chr5:8728874-9695667	Enhancers Genic enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	21 gene(s)	inside rSNPs	diseases
2	nsv1015378	chr5:9053542-9617963	Genic enhancers Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	9 gene(s)	inside rSNPs	diseases
3	nsv537640	chr5:9053542-9617963	Bivalent/Poised TSS Flanking Active TSS Enhancers Weak transcription Bivalent Enhancer Strong transcription Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	9 gene(s)	inside rSNPs	diseases
4	nsv597071	chr5:9182376-9760599	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
5	nsv1032672	chr5:9182409-9843893	Weak transcription Bivalent/Poised TSS Enhancers Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
6	nsv1035075	chr5:9182584-9843723	Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
7	nsv537641	chr5:9182584-9843723	Flanking Active TSS Strong transcription Weak transcription Active TSS Enhancers Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
8	nsv1034637	chr5:9182784-9741743	Genic enhancers Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
9	nsv537642	chr5:9182784-9741743	Enhancers Genic enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
10	nsv1028656	chr5:9196001-9837040	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
11	nsv1016885	chr5:9218932-9575594	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
12	nsv1026078	chr5:9222811-9591290	Enhancers ZNF genes & repeats Genic enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
13	nsv1022137	chr5:9225121-9745434	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
14	nsv537643	chr5:9225121-9745434	Genic enhancers Enhancers Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
15	nsv1022574	chr5:9314645-9647238	Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
16	nsv597072	chr5:9423834-9438566	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS ZNF genes & repeats	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:46 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:9379000-9436200	Weak transcription	Fetal Muscle Trunk	muscle
2	chr5:9395800-9450200	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr5:9398600-9435600	Weak transcription	Rectal Mucosa Donor 29	rectum
4	chr5:9417800-9438600	Weak transcription	Rectal Mucosa Donor 31	rectum
5	chr5:9422800-9437000	Weak transcription	Aorta	Aorta
6	chr5:9427800-9437000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr5:9427800-9439000	Weak transcription	Left Ventricle	heart
8	chr5:9430800-9436200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr5:9430800-9441800	Weak transcription	Esophagus	oesophagus
10	chr5:9432000-9436200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
11	chr5:9432200-9435600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr5:9432400-9435600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr5:9432400-9435800	Weak transcription	Fetal Muscle Leg	muscle
14	chr5:9432400-9436800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
15	chr5:9432400-9437600	Weak transcription	Muscle Satellite Cultured Cells	--
16	chr5:9432400-9438000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr5:9432400-9439000	Weak transcription	Right Ventricle	heart
18	chr5:9432400-9440000	Weak transcription	Pancreas	Pancrea
19	chr5:9432600-9436200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr5:9432600-9436600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr5:9432600-9437000	Weak transcription	GM12878-XiMat	blood
22	chr5:9432600-9437400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr5:9432600-9438000	Weak transcription	Osteobl	bone
24	chr5:9432600-9438400	Weak transcription	HUES48 Cell Line	embryonic stem cell
25	chr5:9432600-9439800	Weak transcription	Brain Hippocampus Middle	brain
26	chr5:9432600-9444600	Weak transcription	Fetal Kidney	kidney
27	chr5:9432800-9436200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
28	chr5:9432800-9436200	Weak transcription	Fetal Stomach	stomach
29	chr5:9432800-9437000	Weak transcription	Fetal Intestine Small	intestine
30	chr5:9432800-9438000	Weak transcription	NHLF	lung
31	chr5:9432800-9438400	Weak transcription	Pancreatic Islets	Pancreatic Islet
32	chr5:9432800-9439600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
33	chr5:9432800-9439600	Weak transcription	Ovary	ovary
34	chr5:9433000-9435600	Weak transcription	Cortex derived primary cultured neurospheres	brain
35	chr5:9433000-9435600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
36	chr5:9433000-9436200	Weak transcription	Fetal Intestine Large	intestine
37	chr5:9433000-9437000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
38	chr5:9433000-9437800	Weak transcription	NHDF-Ad	bronchial
39	chr5:9433000-9439000	Weak transcription	H9 Cell Line	embryonic stem cell
40	chr5:9433000-9439600	Weak transcription	Fetal Heart	heart
41	chr5:9433000-9439600	Weak transcription	Fetal Lung	lung
42	chr5:9433000-9441800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
43	chr5:9433000-9444400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
44	chr5:9434000-9435400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
45	chr5:9434800-9437400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
46	chr5:9434800-9437400	Strong transcription	Placenta Amnion	Placenta Amnion

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