Variant report

Variant	rs58202991
Chromosome Location	chr5:112411684-112411685
allele	C/T
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:28)

rs_ID	r²[population]
rs10038215	1.00[ASN][1000 genomes]
rs10041206	1.00[ASN][1000 genomes]
rs10060897	1.00[ASN][1000 genomes]
rs10074230	1.00[ASN][1000 genomes]
rs10076739	1.00[ASN][1000 genomes]
rs10078365	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10477487	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13356288	1.00[ASN][1000 genomes]
rs28513913	1.00[ASN][1000 genomes]
rs28561975	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28627135	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56783601	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62373347	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62374677	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62374680	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62374681	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62374706	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6594676	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6594678	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6894919	1.00[ASN][1000 genomes]
rs7701630	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7708596	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7718513	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7728587	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7731125	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7734300	0.99[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7734318	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9326876	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[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	nsv599394	chr5:112185491-112446323	Weak transcription Active TSS Strong transcription Genic enhancers Enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
2	nsv599395	chr5:112370311-112428869	Strong transcription Enhancers Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv1018344	chr5:112390951-112458853	Enhancers Weak transcription Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv599396	chr5:112408944-112853189	Weak transcription Active TSS Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:75 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:112363800-112417800	Weak transcription	Duodenum Mucosa	Duodenum
2	chr5:112371400-112423800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr5:112379600-112424200	Weak transcription	Psoas Muscle	Psoas
4	chr5:112384000-112453000	Weak transcription	Rectal Mucosa Donor 29	rectum
5	chr5:112391600-112439000	Weak transcription	Gastric	stomach
6	chr5:112395600-112417600	Weak transcription	Brain Angular Gyrus	brain
7	chr5:112395600-112420400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
8	chr5:112396000-112417200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
9	chr5:112398800-112412400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr5:112399000-112432800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
11	chr5:112399200-112417600	Weak transcription	Fetal Kidney	kidney
12	chr5:112399800-112441800	Weak transcription	Sigmoid Colon	Sigmoid Colon
13	chr5:112400000-112417600	Weak transcription	Skeletal Muscle Female	skeletal muscle
14	chr5:112400200-112416800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr5:112400200-112416800	Weak transcription	Muscle Satellite Cultured Cells	--
16	chr5:112400800-112423800	Weak transcription	Aorta	Aorta
17	chr5:112402600-112425600	Weak transcription	Rectal Smooth Muscle	rectum
18	chr5:112403800-112418400	Weak transcription	Brain Substantia Nigra	brain
19	chr5:112404000-112413800	Weak transcription	Brain Hippocampus Middle	brain
20	chr5:112404000-112426000	Weak transcription	Brain Cingulate Gyrus	brain
21	chr5:112404400-112411800	Strong transcription	Stomach Smooth Muscle	stomach
22	chr5:112404400-112428000	Weak transcription	Placenta	Placenta
23	chr5:112404400-112436800	Weak transcription	Fetal Brain Male	brain
24	chr5:112404600-112417000	Weak transcription	HSMMtube	muscle
25	chr5:112404800-112425400	Weak transcription	Skeletal Muscle Male	skeletal muscle
26	chr5:112406000-112416800	Weak transcription	Duodenum Smooth Muscle	Duodenum
27	chr5:112406800-112413600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
28	chr5:112406800-112416800	Weak transcription	HMEC	breast
29	chr5:112407000-112416800	Weak transcription	NHEK	skin
30	chr5:112407200-112417000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
31	chr5:112407400-112418000	Weak transcription	H9 Cell Line	embryonic stem cell
32	chr5:112409000-112419600	Weak transcription	Fetal Heart	heart
33	chr5:112409200-112416600	Weak transcription	H1 Cell Line	embryonic stem cell
34	chr5:112409200-112416600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
35	chr5:112409400-112416600	Weak transcription	HUES64 Cell Line	embryonic stem cell
36	chr5:112409400-112416800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
37	chr5:112410000-112411800	Strong transcription	Liver	Liver
38	chr5:112410200-112414400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
39	chr5:112410400-112412000	Strong transcription	Esophagus	oesophagus
40	chr5:112410600-112411800	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
41	chr5:112410600-112411800	ZNF genes & repeats	Fetal Intestine Large	intestine
42	chr5:112410600-112411800	ZNF genes & repeats	Fetal Muscle Leg	muscle
43	chr5:112410600-112411800	ZNF genes & repeats	Fetal Stomach	stomach
44	chr5:112410600-112411800	ZNF genes & repeats	Pancreas	Pancrea
45	chr5:112410600-112412400	Strong transcription	Cortex derived primary cultured neurospheres	brain
46	chr5:112410600-112412600	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
47	chr5:112410800-112412200	ZNF genes & repeats	Fetal Intestine Small	intestine
48	chr5:112411000-112411800	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
49	chr5:112411000-112412000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
50	chr5:112411000-112412000	Strong transcription	Pancreatic Islets	Pancreatic Islet

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