Variant report

Variant	rs67138019
Chromosome Location	chr12:50674049-50674050
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr12:50665714..50669767-chr12:50671688..50676181,4	MCF-7	breast:
2	chr12:50640226..50641774-chr12:50672197..50675094,2	K562	blood:
3	chr12:50672633..50674582-chr12:50677546..50679089,2	K562	blood:
4	chr12:50672480..50674370-chr12:50677048..50678907,2	MCF-7	breast:
5	chr12:50666860..50670693-chr12:50671075..50676885,6	K562	blood:
6	chr12:50671138..50674964-chr12:50675618..50679032,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000203433	Chromatin interaction
ENSG00000050405	Chromatin interaction

Extended variants
information (count: 121 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:116)

rs_ID	r²[population]
rs10506292	0.86[AMR][1000 genomes]
rs10783344	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10783349	0.89[EUR][1000 genomes]
rs10783350	0.87[EUR][1000 genomes]
rs10876013	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10876014	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10876015	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10876016	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10876017	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10876018	0.87[EUR][1000 genomes]
rs11169314	0.86[EUR][1000 genomes]
rs11169315	0.86[EUR][1000 genomes]
rs11169317	0.88[EUR][1000 genomes]
rs11169319	0.87[EUR][1000 genomes]
rs11169322	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11169331	0.90[EUR][1000 genomes]
rs11169332	0.90[EUR][1000 genomes]
rs11169335	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11169339	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11169345	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11169347	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11169348	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11169349	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11169350	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11169351	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11169357	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11169359	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11169360	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11169367	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11169369	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11169370	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11169371	0.88[EUR][1000 genomes]
rs11169373	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11169374	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11169375	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11169376	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11169377	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11169379	0.87[EUR][1000 genomes]
rs11169386	0.86[EUR][1000 genomes]
rs11836169	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11838347	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12312177	0.84[AMR][1000 genomes]
rs12424691	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12424713	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12425229	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12425705	0.90[EUR][1000 genomes]
rs12426444	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12811291	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12821454	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12821504	0.84[EUR][1000 genomes]
rs12823506	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12828340	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12832940	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1362983	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17124562	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1972611	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2009072	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2111988	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2302900	0.87[EUR][1000 genomes]
rs2358539	0.90[EUR][1000 genomes]
rs28628775	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs34039674	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34614542	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs34825838	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs34849043	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs34858415	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs34894919	0.89[AMR][1000 genomes]
rs35209607	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs35535298	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs35663729	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs35768991	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs35878271	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs35933908	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs36017775	0.87[AMR][1000 genomes]
rs3812825	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs3861100	0.87[EUR][1000 genomes]
rs4768872	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4768949	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4768951	0.86[EUR][1000 genomes]
rs6580735	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6580736	0.91[EUR][1000 genomes]
rs6580737	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6580738	0.91[EUR][1000 genomes]
rs6580739	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6580740	0.88[EUR][1000 genomes]
rs6580741	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7132551	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7135777	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs71465002	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7295847	0.86[AMR][1000 genomes]
rs7296291	0.86[AMR][1000 genomes]
rs7301186	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7301189	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7304445	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7305995	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7308095	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7308885	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7310541	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7311378	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7311491	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7311973	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7312252	0.86[AMR][1000 genomes]
rs7314465	0.90[EUR][1000 genomes]
rs7315871	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7315955	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7399343	0.87[EUR][1000 genomes]
rs7485486	0.88[EUR][1000 genomes]
rs7486747	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7488682	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7489214	0.87[EUR][1000 genomes]
rs7953953	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7956468	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7974648	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7979830	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7980911	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9705460	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[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	nsv530671	chr12:50233858-50708991	Flanking Active TSS Active TSS Enhancers Weak transcription Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	117 gene(s)	inside rSNPs	diseases
2	nsv899075	chr12:50594947-50835060	Flanking Active TSS Weak transcription Enhancers Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	56 gene(s)	inside rSNPs	diseases
3	esv2761738	chr12:50627292-50836427	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	50 gene(s)	inside rSNPs	diseases
4	nsv1035796	chr12:50634342-50784312	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
5	nsv702	chr12:50670870-50715934	Flanking Active TSS Active TSS Weak transcription Enhancers Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs67138019	ATF1	cis	Artery Tibial	GTEx
rs67138019	CERS5	cis	Nerve Tibial	GTEx

Chromatin state (count:61 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:50652200-50675800	Weak transcription	Fetal Stomach	stomach
2	chr12:50652400-50676200	Weak transcription	Brain Hippocampus Middle	brain
3	chr12:50652400-50676400	Weak transcription	HSMM	muscle
4	chr12:50662200-50676400	Weak transcription	Brain Cingulate Gyrus	brain
5	chr12:50665000-50676400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr12:50665600-50675800	Weak transcription	Skeletal Muscle Female	skeletal muscle
7	chr12:50665600-50676200	Weak transcription	Fetal Muscle Leg	muscle
8	chr12:50665800-50676000	Weak transcription	Skeletal Muscle Male	skeletal muscle
9	chr12:50665800-50676400	Weak transcription	HUES48 Cell Line	embryonic stem cell
10	chr12:50666000-50674800	Weak transcription	Duodenum Smooth Muscle	Duodenum
11	chr12:50666000-50675200	Weak transcription	Rectal Smooth Muscle	rectum
12	chr12:50666000-50676400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr12:50666000-50676400	Weak transcription	Ovary	ovary
14	chr12:50666200-50675600	Weak transcription	Fetal Lung	lung
15	chr12:50666200-50676400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
16	chr12:50666200-50676400	Weak transcription	Liver	Liver
17	chr12:50666400-50676400	Weak transcription	Right Ventricle	heart
18	chr12:50667600-50674600	Weak transcription	Pancreatic Islets	Pancreatic Islet
19	chr12:50668200-50676200	Weak transcription	Fetal Muscle Trunk	muscle
20	chr12:50668600-50676400	Weak transcription	Sigmoid Colon	Sigmoid Colon
21	chr12:50669800-50675600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
22	chr12:50669800-50676400	Weak transcription	Primary T cells fromperipheralblood	blood
23	chr12:50669800-50676400	Weak transcription	HMEC	breast
24	chr12:50670000-50676600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
25	chr12:50670200-50675800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
26	chr12:50670200-50676200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
27	chr12:50670200-50676200	Weak transcription	Pancreas	Pancrea
28	chr12:50670200-50676400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
29	chr12:50670200-50676400	Weak transcription	NHEK	skin
30	chr12:50670400-50675400	Weak transcription	Adipose Nuclei	Adipose
31	chr12:50670600-50676400	Weak transcription	Lung	lung
32	chr12:50671000-50676200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
33	chr12:50671000-50676400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
34	chr12:50671400-50675200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
35	chr12:50671400-50676200	Weak transcription	Osteobl	bone
36	chr12:50671400-50676400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
37	chr12:50671400-50676400	Weak transcription	K562	blood
38	chr12:50671600-50674400	Weak transcription	Rectal Mucosa Donor 29	rectum
39	chr12:50671600-50674600	Weak transcription	HepG2	liver
40	chr12:50671600-50675000	Weak transcription	Colonic Mucosa	Colon
41	chr12:50671600-50675000	Weak transcription	Stomach Mucosa	stomach
42	chr12:50671600-50675200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
43	chr12:50671600-50675400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
44	chr12:50671600-50675400	Weak transcription	NHDF-Ad	bronchial
45	chr12:50671600-50675600	Weak transcription	Cortex derived primary cultured neurospheres	brain
46	chr12:50671600-50676200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
47	chr12:50671600-50676200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
48	chr12:50671600-50676400	Weak transcription	Psoas Muscle	Psoas
49	chr12:50671600-50676400	Weak transcription	A549	lung
50	chr12:50671800-50675400	Weak transcription	Small Intestine	intestine

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