Variant report

Variant	rs2239136
Chromosome Location	chr12:2233929-2233930
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs1005618	0.98[EUR][1000 genomes]
rs1122864	0.98[EUR][1000 genomes]
rs2238027	0.84[CHB][hapmap]
rs2238033	0.89[CHB][hapmap]
rs2238034	0.94[CEU][hapmap];0.86[GIH][hapmap];0.87[MEX][hapmap];1.00[TSI][hapmap];0.98[EUR][1000 genomes]
rs2238042	0.82[CEU][hapmap]
rs2239134	0.87[ASN][1000 genomes]
rs2283279	0.89[CHB][hapmap]
rs2283281	0.84[CHB][hapmap]
rs2283282	0.84[CHB][hapmap]
rs2283283	0.84[CHB][hapmap]
rs2283285	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2299661	0.89[CHB][hapmap]
rs2299662	0.89[CHB][hapmap]
rs2299664	0.89[CHB][hapmap]
rs3794301	0.89[CHB][hapmap]
rs4126711	0.94[CHB][hapmap]
rs4765897	0.89[CHB][hapmap]
rs6489348	0.89[CHB][hapmap]
rs727267	0.89[CHB][hapmap]
rs758723	0.84[CHB][hapmap]
rs874924	0.89[CHB][hapmap];0.80[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:26 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948480	chr12:1776217-2284333	Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	nsv1040370	chr12:2021395-2671017	Enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
3	nsv948400	chr12:2022411-2601363	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Bivalent/Poised TSS 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
4	nsv521838	chr12:2060580-2299680	Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Flanking Active TSS Enhancers Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	nsv1035885	chr12:2077660-2310157	Enhancers Weak transcription Genic enhancers Bivalent/Poised TSS Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
6	nsv541350	chr12:2077660-2310157	Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
7	nsv1038722	chr12:2085035-2308205	Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
8	nsv541351	chr12:2085035-2308205	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
9	nsv826183	chr12:2147469-2257818	Flanking Bivalent TSS/Enh Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
10	nsv898603	chr12:2208390-2268143	Genic enhancers Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	Chromatin interactive region	n/a	inside rSNPs	diseases
11	nsv1053798	chr12:2214047-2253488	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh	Chromatin interactive region	n/a	inside rSNPs	diseases
12	nsv557033	chr12:2215448-2252924	Enhancers Genic enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	Chromatin interactive region	n/a	inside rSNPs	diseases
13	nsv1041740	chr12:2218997-2259643	Weak transcription Enhancers Genic enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh	Chromatin interactive region	n/a	inside rSNPs	diseases
14	nsv557034	chr12:2226045-2251273	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	Chromatin interactive region	n/a	inside rSNPs	diseases
15	nsv1052890	chr12:2226045-2251869	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
16	nsv557035	chr12:2227311-2252924	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	Chromatin interactive region	n/a	inside rSNPs	diseases
17	nsv468967	chr12:2227311-2268143	Enhancers Weak transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	Chromatin interactive region	n/a	inside rSNPs	diseases
18	nsv557036	chr12:2227311-2268143	Weak transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
19	nsv1041632	chr12:2230012-2257585	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
20	nsv557037	chr12:2230055-2257916	Weak transcription Enhancers ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh	Chromatin interactive region	n/a	inside rSNPs	diseases
21	nsv1036646	chr12:2232157-2257908	Strong transcription Enhancers Weak transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	Chromatin interactive region	n/a	inside rSNPs	diseases
22	nsv1039310	chr12:2232157-2258394	Active TSS Enhancers Weak transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh	Chromatin interactive region	n/a	inside rSNPs	diseases
23	esv2760788	chr12:2232157-2270291	Strong transcription Weak transcription Active TSS Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	Chromatin interactive region	n/a	inside rSNPs	diseases
24	nsv557038	chr12:2233023-2257495	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	Chromatin interactive region	n/a	inside rSNPs	diseases
25	nsv1044373	chr12:2233929-2258394	Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
26	nsv1049985	chr12:2233929-2260754	Weak transcription Enhancers Strong transcription Bivalent Enhancer Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:2219000-2234000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr12:2220800-2235400	Weak transcription	Brain Cingulate Gyrus	brain
3	chr12:2222000-2235400	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr12:2222400-2239000	Weak transcription	Brain Anterior Caudate	brain
5	chr12:2222800-2236000	Weak transcription	Lung	lung
6	chr12:2223200-2250200	Weak transcription	Brain Substantia Nigra	brain
7	chr12:2223400-2234000	Weak transcription	Spleen	Spleen
8	chr12:2223600-2238200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
9	chr12:2227800-2235800	Weak transcription	Fetal Kidney	kidney
10	chr12:2228000-2234200	Weak transcription	Brain Inferior Temporal Lobe	brain
11	chr12:2228000-2235800	Weak transcription	Brain Angular Gyrus	brain
12	chr12:2228600-2235200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
13	chr12:2228800-2234200	Weak transcription	Right Atrium	heart
14	chr12:2229800-2237200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr12:2229800-2245600	Weak transcription	Stomach Mucosa	stomach
16	chr12:2230400-2237800	Weak transcription	NHDF-Ad	bronchial
17	chr12:2230600-2235200	Weak transcription	Duodenum Smooth Muscle	Duodenum
18	chr12:2231000-2238000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
19	chr12:2231200-2235000	Weak transcription	Rectal Smooth Muscle	rectum
20	chr12:2231200-2238000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr12:2231600-2234200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
22	chr12:2231600-2234800	Weak transcription	Fetal Lung	lung
23	chr12:2231600-2240000	Weak transcription	NHLF	lung
24	chr12:2231800-2238000	Weak transcription	Osteobl	bone
25	chr12:2232000-2246800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr12:2232200-2236600	Weak transcription	Fetal Intestine Small	intestine
27	chr12:2232200-2254800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
28	chr12:2232400-2245400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
29	chr12:2232600-2234400	Enhancers	Left Ventricle	heart
30	chr12:2233200-2234400	Strong transcription	Stomach Smooth Muscle	stomach
31	chr12:2233200-2236800	Enhancers	Fetal Heart	heart
32	chr12:2233400-2235400	Weak transcription	Fetal Brain Male	brain
33	chr12:2233600-2234200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
34	chr12:2233600-2234400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
35	chr12:2233600-2234400	ZNF genes & repeats	Fetal Stomach	stomach
36	chr12:2233600-2235000	Strong transcription	Aorta	Aorta
37	chr12:2233600-2235800	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
38	chr12:2233800-2234200	Strong transcription	Colon Smooth Muscle	Colon
39	chr12:2233800-2234200	Enhancers	Right Ventricle	heart

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