Variant report

Variant	rs60892841
Chromosome Location	chr5:14373899-14373900
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10866506	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10866507	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11133785	0.85[EUR][1000 genomes]
rs11949756	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11950000	0.84[EUR][1000 genomes]
rs11959397	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12109453	0.93[EUR][1000 genomes]
rs12109756	0.93[EUR][1000 genomes]
rs12109880	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12110161	0.93[EUR][1000 genomes]
rs12110267	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs16903421	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs16903423	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs16903428	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs16903434	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs16903453	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs16903460	0.93[EUR][1000 genomes]
rs16903464	0.93[EUR][1000 genomes]
rs35373258	0.93[EUR][1000 genomes]
rs56689214	0.93[EUR][1000 genomes]
rs57017859	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs57640930	0.84[EUR][1000 genomes]
rs59405120	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs60738268	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs60768136	0.85[EUR][1000 genomes]
rs61059406	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs61469842	0.97[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs62344976	0.85[EUR][1000 genomes]
rs62344979	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62344981	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs62344983	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62344984	0.83[EUR][1000 genomes]
rs62345009	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs62345012	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62345015	0.93[EUR][1000 genomes]
rs66554336	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs730185	0.83[EUR][1000 genomes]
rs73061636	0.84[EUR][1000 genomes]
rs7706484	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7710935	0.85[EUR][1000 genomes]
rs7715916	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7731443	0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948355	chr5:14160447-14395478	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
2	nsv1026914	chr5:14237782-14751588	Weak transcription Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
3	nsv830210	chr5:14255039-14431552	Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:112 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:14351600-14399400	Weak transcription	Primary neutrophils fromperipheralblood	blood
2	chr5:14353600-14385200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
3	chr5:14353600-14398800	Strong transcription	Rectal Mucosa Donor 29	rectum
4	chr5:14354400-14374800	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr5:14354600-14402400	Strong transcription	Liver	Liver
6	chr5:14355000-14392400	Strong transcription	HSMMtube	muscle
7	chr5:14355000-14398800	Strong transcription	Rectal Mucosa Donor 31	rectum
8	chr5:14355600-14375000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr5:14356800-14376000	Strong transcription	HepG2	liver
10	chr5:14357000-14374000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
11	chr5:14357000-14376400	Strong transcription	NHLF	lung
12	chr5:14357000-14376600	Strong transcription	Duodenum Mucosa	Duodenum
13	chr5:14357600-14422000	Weak transcription	Stomach Mucosa	stomach
14	chr5:14357800-14385000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr5:14357800-14389800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
16	chr5:14358000-14377000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
17	chr5:14358000-14385800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
18	chr5:14358000-14389800	Strong transcription	Adipose Nuclei	Adipose
19	chr5:14358200-14375800	Strong transcription	Stomach Smooth Muscle	stomach
20	chr5:14358200-14391600	Strong transcription	Primary B cells from cord blood	blood
21	chr5:14358400-14374200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
22	chr5:14358400-14374600	Strong transcription	Fetal Stomach	stomach
23	chr5:14358400-14385600	Strong transcription	Fetal Intestine Large	intestine
24	chr5:14358400-14392000	Strong transcription	Fetal Muscle Leg	muscle
25	chr5:14358600-14374000	Strong transcription	Cortex derived primary cultured neurospheres	brain
26	chr5:14358600-14392600	Strong transcription	Duodenum Smooth Muscle	Duodenum
27	chr5:14358800-14375600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
28	chr5:14360000-14398400	Strong transcription	Fetal Muscle Trunk	muscle
29	chr5:14363600-14374800	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
30	chr5:14363600-14386000	Strong transcription	Skeletal Muscle Female	skeletal muscle
31	chr5:14363600-14396000	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
32	chr5:14363800-14374600	Strong transcription	Rectal Smooth Muscle	rectum
33	chr5:14363800-14380000	Strong transcription	Placenta	Placenta
34	chr5:14363800-14380400	Strong transcription	Hela-S3	cervix
35	chr5:14363800-14383200	Strong transcription	Colonic Mucosa	Colon
36	chr5:14363800-14383800	Strong transcription	HUVEC	blood vessel
37	chr5:14363800-14385600	Strong transcription	A549	lung
38	chr5:14363800-14430600	Strong transcription	Primary monocytes fromperipheralblood	blood
39	chr5:14363800-14430600	Strong transcription	Monocytes-CD14+_RO01746	blood
40	chr5:14364600-14376400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
41	chr5:14365600-14374000	Strong transcription	HMEC	breast
42	chr5:14365600-14379200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
43	chr5:14366000-14392400	Strong transcription	HSMM	muscle
44	chr5:14366400-14374600	Strong transcription	GM12878-XiMat	blood
45	chr5:14366600-14379200	Strong transcription	Primary B cells from peripheral blood	blood
46	chr5:14366600-14380000	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
47	chr5:14366600-14385600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
48	chr5:14366600-14391600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
49	chr5:14366800-14374800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
50	chr5:14366800-14403200	Strong transcription	Primary hematopoietic stem cells short term culture	blood

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