Variant report

Variant	rs221927
Chromosome Location	chr14:71578741-71578742
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr14:71576318..71579821-chr14:71580472..71584172,4	MCF-7	breast:

Extended variants
information (count: 79 )
Associated
traits (count: 6 )

rSNPs within LD-proxies of this variant (count:69)

rs_ID	r²[population]
rs12100737	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12101246	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12883437	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12892739	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12896370	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12897533	0.81[EUR][1000 genomes]
rs17093738	0.81[AMR][1000 genomes]
rs17108804	0.80[AFR][1000 genomes];0.87[AMR][1000 genomes];0.81[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs17108822	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs17108877	0.80[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs17108925	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17108967	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs183404	0.84[ASN][1000 genomes]
rs2158997	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs221899	0.94[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs221902	0.94[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs221903	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs221907	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs221909	0.81[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs221912	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs221920	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs221921	0.85[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs221922	0.85[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs221923	0.83[AFR][1000 genomes];0.99[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2286310	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2332477	0.81[AMR][1000 genomes]
rs2526846	0.80[AFR][1000 genomes];0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2526852	0.80[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs2526855	0.83[AMR][1000 genomes]
rs2526860	0.83[AMR][1000 genomes]
rs2526862	0.83[AMR][1000 genomes]
rs2526877	0.80[AFR][1000 genomes];0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2526890	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2810098	0.80[AFR][1000 genomes];0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2810100	0.80[AFR][1000 genomes];0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2810107	0.80[AFR][1000 genomes];0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs28374308	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs34049963	0.80[AFR][1000 genomes];0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs34093157	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs34257131	0.85[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs34368938	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs34488204	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs34731365	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs34763296	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs35631530	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3814869	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3814871	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4048474	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4132849	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4391999	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4426283	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs56021283	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs58133478	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs58984901	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs59699904	0.81[AMR][1000 genomes]
rs61990419	0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs67981189	0.84[AMR][1000 genomes]
rs7145484	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7146591	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7146932	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7153237	0.85[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7157250	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs8003103	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs8003227	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs8007026	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs8012728	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs8016506	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs8022768	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs8181986	0.81[AMR][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	nsv1041980	chr14:71196358-71767339	Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	nsv542125	chr14:71196358-71767339	Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
3	nsv1035416	chr14:71212882-71623271	Strong transcription Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
4	nsv542126	chr14:71212882-71623271	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
5	nsv1037839	chr14:71263886-71625114	Flanking Active TSS Weak transcription Genic enhancers Active TSS Strong transcription Enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
6	nsv542127	chr14:71263886-71625114	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
7	nsv1038007	chr14:71269747-71667680	Weak transcription Enhancers Genic enhancers Active TSS Strong transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
8	nsv565043	chr14:71395604-71625112	Strong transcription Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
9	nsv1036929	chr14:71469148-71683412	Strong transcription Genic enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
10	nsv1044090	chr14:71496198-71780026	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases

mRNA abundance (count:6)

SNP	Gene	Cis/trans	Tissue	Source
rs221927	PCNX	cis	Artery Tibial	GTEx
rs221927	PCNX	cis	Nerve Tibial	GTEx
rs221927	PCNX	cis	Thyroid	GTEx
rs221927	PCNX	Cis_1M	lymphoblastoid	RTeQTL
rs221927	PCNX	cis	Artery Aorta	GTEx
rs221927	PCNX	cis	Skin Sun Exposed Lower leg	GTEx

Chromatin state (count:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:71538800-71584800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr14:71544800-71581400	Weak transcription	Small Intestine	intestine
3	chr14:71552000-71588400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr14:71556000-71582200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr14:71556400-71583000	Weak transcription	Brain Substantia Nigra	brain
6	chr14:71557200-71582000	Weak transcription	HUVEC	blood vessel
7	chr14:71559800-71584000	Weak transcription	Pancreatic Islets	Pancreatic Islet
8	chr14:71564000-71583600	Weak transcription	Fetal Brain Male	brain
9	chr14:71566600-71582200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
10	chr14:71566600-71582600	Strong transcription	Primary T helper cells PMA-I stimulated	--
11	chr14:71566800-71582400	Strong transcription	Primary monocytes fromperipheralblood	blood
12	chr14:71566800-71583400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
13	chr14:71566800-71585800	Strong transcription	Primary neutrophils fromperipheralblood	blood
14	chr14:71567200-71578800	Strong transcription	Primary T cells fromperipheralblood	blood
15	chr14:71567200-71581600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr14:71567200-71583800	Strong transcription	Monocytes-CD14+_RO01746	blood
17	chr14:71567400-71581600	Strong transcription	Primary T helper cells fromperipheralblood	blood
18	chr14:71567600-71578800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr14:71567600-71582600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr14:71568400-71578800	Strong transcription	HUES64 Cell Line	embryonic stem cell
21	chr14:71568600-71578800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
22	chr14:71568800-71578800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
23	chr14:71570600-71579800	Weak transcription	Brain Angular Gyrus	brain
24	chr14:71570600-71581800	Weak transcription	Psoas Muscle	Psoas
25	chr14:71571400-71578800	Strong transcription	Adipose Nuclei	Adipose
26	chr14:71571800-71578800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr14:71572200-71585400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
28	chr14:71572400-71579000	Weak transcription	H9 Cell Line	embryonic stem cell
29	chr14:71572400-71581400	Weak transcription	Stomach Mucosa	stomach
30	chr14:71572600-71584400	Weak transcription	Placenta Amnion	Placenta Amnion
31	chr14:71573200-71581800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
32	chr14:71573200-71583000	Strong transcription	Primary hematopoietic stem cells	blood
33	chr14:71573600-71583800	Strong transcription	HSMM	muscle
34	chr14:71574200-71579000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
35	chr14:71574200-71579000	Strong transcription	Duodenum Smooth Muscle	Duodenum
36	chr14:71574800-71579000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
37	chr14:71574800-71581000	Strong transcription	Primary T helper memory cells from peripheral blood 2	blood
38	chr14:71575800-71579000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
39	chr14:71575800-71581800	Weak transcription	Esophagus	oesophagus
40	chr14:71575800-71582600	Weak transcription	Colon Smooth Muscle	Colon
41	chr14:71575800-71586600	Weak transcription	Right Ventricle	heart
42	chr14:71575800-71588200	Weak transcription	Aorta	Aorta
43	chr14:71575800-71589800	Weak transcription	Fetal Brain Female	brain
44	chr14:71576400-71582800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
45	chr14:71576400-71590400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
46	chr14:71576600-71580200	Weak transcription	Fetal Thymus	thymus
47	chr14:71576600-71580600	Weak transcription	Fetal Intestine Small	intestine
48	chr14:71576600-71582600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
49	chr14:71576600-71583000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
50	chr14:71576600-71583200	Weak transcription	Fetal Stomach	stomach

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