Variant report

Variant	rs55930021
Chromosome Location	chr12:42945436-42945437
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10128834	0.81[AMR][1000 genomes]
rs11181553	0.99[AFR][1000 genomes];0.89[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11181555	0.81[AFR][1000 genomes]
rs11181556	0.94[AFR][1000 genomes];0.89[AMR][1000 genomes];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11181560	0.84[AFR][1000 genomes];0.89[AMR][1000 genomes];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12228734	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12309366	0.87[ASN][1000 genomes]
rs12312958	0.99[AFR][1000 genomes];0.89[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12320873	0.98[AFR][1000 genomes];0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12321305	0.87[ASN][1000 genomes]
rs12321729	0.87[ASN][1000 genomes]
rs17091361	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2103410	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs56898852	0.98[AFR][1000 genomes];0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6582403	0.92[AFR][1000 genomes];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7308904	0.94[AFR][1000 genomes];0.89[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7955255	0.98[AFR][1000 genomes];0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7965297	0.84[AFR][1000 genomes];0.85[AMR][1000 genomes];0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1044790	chr12:42672255-43344184	Enhancers Bivalent Enhancer Strong transcription Weak transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	29 gene(s)	inside rSNPs	diseases
2	nsv541483	chr12:42672255-43344184	Active TSS Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	29 gene(s)	inside rSNPs	diseases
3	nsv832388	chr12:42878328-43087069	Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
4	nsv1036522	chr12:42926075-42961887	Weak transcription Bivalent/Poised TSS Genic enhancers Enhancers Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:42913800-42957600	Weak transcription	HMEC	breast
2	chr12:42914400-42952600	Weak transcription	Aorta	Aorta
3	chr12:42914600-42954800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr12:42928200-42946600	Weak transcription	Spleen	Spleen
5	chr12:42929600-42950200	Weak transcription	Left Ventricle	heart
6	chr12:42938400-42946800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr12:42939800-42971000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr12:42941200-42963400	Weak transcription	NHEK	skin
9	chr12:42941400-42946200	Weak transcription	Adipose Nuclei	Adipose
10	chr12:42941400-42947400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr12:42941400-42952200	Weak transcription	Ovary	ovary
12	chr12:42942400-42950800	Weak transcription	Psoas Muscle	Psoas
13	chr12:42942600-42951200	Weak transcription	Fetal Lung	lung
14	chr12:42943600-42951600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr12:42943600-42957800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
16	chr12:42943800-42946200	Weak transcription	HUVEC	blood vessel
17	chr12:42943800-42950200	Weak transcription	Right Atrium	heart
18	chr12:42943800-42951600	Weak transcription	Osteobl	bone
19	chr12:42943800-42954400	Weak transcription	HSMMtube	muscle
20	chr12:42943800-42955600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr12:42943800-42958200	Weak transcription	NH-A	brain
22	chr12:42944000-42946000	Weak transcription	Fetal Muscle Leg	muscle
23	chr12:42944000-42954800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
24	chr12:42944000-42955000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
25	chr12:42944000-42959800	Weak transcription	Fetal Muscle Trunk	muscle
26	chr12:42944200-42946400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
27	chr12:42944200-42958200	Weak transcription	Fetal Stomach	stomach
28	chr12:42944400-42945600	Enhancers	Fetal Heart	heart
29	chr12:42944400-42954600	Weak transcription	HSMM	muscle
30	chr12:42945400-42945600	Enhancers	Fetal Kidney	kidney
31	chr12:42945400-42946400	Weak transcription	Brain Germinal Matrix	brain

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