Variant report

Variant	rs13168165
Chromosome Location	chr5:60665439-60665440
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10076568	1.00[LWK][hapmap]
rs10514908	0.80[ASN][1000 genomes]
rs10514909	0.89[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs10939897	0.91[CEU][hapmap]
rs11738493	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11741726	0.87[AMR][1000 genomes]
rs11746741	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11960587	0.92[CEU][hapmap]
rs13154581	1.00[ASW][hapmap];0.92[CEU][hapmap];0.83[GIH][hapmap];0.86[MEX][hapmap];0.81[TSI][hapmap]
rs13154663	0.85[CEU][hapmap]
rs13156118	0.92[CEU][hapmap]
rs13158938	0.80[ASN][1000 genomes]
rs13162534	1.00[CHD][hapmap];0.88[JPT][hapmap]
rs13164700	0.80[ASN][1000 genomes]
rs13167695	0.88[JPT][hapmap];0.81[AMR][1000 genomes]
rs13174756	0.88[ASN][1000 genomes]
rs13178686	1.00[CEU][hapmap];0.89[JPT][hapmap]
rs17424296	0.88[JPT][hapmap]
rs34027100	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs34323293	0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs34993457	0.89[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs35704054	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36069847	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4544785	0.85[CEU][hapmap]
rs55819324	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62368661	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62368664	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6870349	0.85[CEU][hapmap]
rs7446236	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7721603	1.00[LWK][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1028884	chr5:60414723-60732779	Bivalent Enhancer Enhancers Weak transcription Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	46 gene(s)	inside rSNPs	diseases
2	nsv823089	chr5:60589501-60669903	Weak transcription Flanking Active TSS Active TSS Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:60640400-60665600	Weak transcription	Gastric	stomach
2	chr5:60641600-60667400	Weak transcription	Fetal Kidney	kidney
3	chr5:60649000-60666400	Weak transcription	Rectal Mucosa Donor 31	rectum
4	chr5:60653400-60667200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr5:60653600-60666800	Weak transcription	NHEK	skin
6	chr5:60653600-60667400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr5:60653800-60681200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr5:60654000-60667400	Weak transcription	Hela-S3	cervix
9	chr5:60654000-60681400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr5:60656800-60666600	Weak transcription	HUES6 Cell Line	embryonic stem cell
11	chr5:60657000-60666800	Weak transcription	Small Intestine	intestine
12	chr5:60657600-60676400	Weak transcription	Cortex derived primary cultured neurospheres	brain
13	chr5:60658200-60674400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr5:60658400-60666800	Weak transcription	Fetal Intestine Small	intestine
15	chr5:60658800-60686600	Weak transcription	Fetal Stomach	stomach
16	chr5:60659000-60666400	Weak transcription	Left Ventricle	heart
17	chr5:60659000-60666400	Weak transcription	Rectal Mucosa Donor 29	rectum
18	chr5:60659000-60666600	Weak transcription	Fetal Intestine Large	intestine
19	chr5:60659000-60667000	Weak transcription	HUES64 Cell Line	embryonic stem cell
20	chr5:60659000-60674600	Weak transcription	Pancreas	Pancrea
21	chr5:60659000-60681600	Weak transcription	Duodenum Smooth Muscle	Duodenum
22	chr5:60659000-60703800	Weak transcription	Primary B cells from cord blood	blood
23	chr5:60659200-60666400	Weak transcription	Duodenum Mucosa	Duodenum
24	chr5:60659200-60686600	Weak transcription	Primary monocytes fromperipheralblood	blood
25	chr5:60659400-60665600	Weak transcription	HUVEC	blood vessel
26	chr5:60659400-60666400	Weak transcription	A549	lung
27	chr5:60659400-60669400	Weak transcription	NHDF-Ad	bronchial
28	chr5:60659400-60703600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
29	chr5:60659600-60667800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
30	chr5:60659600-60670800	Weak transcription	Fetal Brain Male	brain
31	chr5:60659600-60697600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
32	chr5:60660200-60681600	Weak transcription	HSMM	muscle
33	chr5:60660800-60667400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr5:60661800-60686800	Weak transcription	Monocytes-CD14+_RO01746	blood
35	chr5:60662200-60686800	Weak transcription	NHLF	lung
36	chr5:60663200-60686800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
37	chr5:60663400-60666800	Weak transcription	Right Atrium	heart
38	chr5:60663400-60677400	Weak transcription	Brain Inferior Temporal Lobe	brain
39	chr5:60663400-60690000	Weak transcription	Psoas Muscle	Psoas
40	chr5:60664600-60665600	Enhancers	Brain Hippocampus Middle	brain
41	chr5:60664800-60666400	Weak transcription	Sigmoid Colon	Sigmoid Colon
42	chr5:60664800-60674600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
43	chr5:60665200-60665600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
44	chr5:60665200-60665600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
45	chr5:60665200-60665600	Weak transcription	Brain Substantia Nigra	brain
46	chr5:60665200-60666200	Weak transcription	Adipose Nuclei	Adipose
47	chr5:60665400-60666200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
48	chr5:60665400-60666400	Weak transcription	Brain Anterior Caudate	brain
49	chr5:60665400-60673400	Weak transcription	Ovary	ovary
50	chr5:60665400-60686800	Weak transcription	Aorta	Aorta

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