Variant report

Variant	rs13142452
Chromosome Location	chr4:100545618-100545619
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs11097666	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13121590	0.84[EUR][1000 genomes]
rs13129571	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs13135675	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13135826	1.00[CEU][hapmap];0.81[YRI][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13151234	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17029189	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17029211	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17029213	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17029215	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17029260	0.97[EUR][1000 genomes]
rs17029263	0.97[EUR][1000 genomes]
rs17029264	0.83[EUR][1000 genomes]
rs34135026	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs34246356	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs34678000	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34734558	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34756677	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34777713	0.97[AFR][1000 genomes];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs34870956	0.97[EUR][1000 genomes]
rs34874297	0.97[EUR][1000 genomes]
rs35074439	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs35189300	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs35391161	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35402611	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs35561084	0.90[EUR][1000 genomes]
rs35595171	0.90[EUR][1000 genomes]
rs35661838	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs35824615	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35826214	0.97[EUR][1000 genomes]
rs35992230	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs41275719	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6532821	1.00[CEU][hapmap];0.84[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6821960	1.00[CEU][hapmap]
rs6825904	0.97[EUR][1000 genomes]
rs6851824	0.97[EUR][1000 genomes]
rs71612697	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs71612700	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs71612702	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71614603	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71614604	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs71619723	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7665414	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7667001	1.00[CEU][hapmap];0.82[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7688278	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7695727	0.97[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv933074	chr4:100460951-100630600	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:100516400-100546200	Strong transcription	Liver	Liver
2	chr4:100522600-100545800	Strong transcription	Fetal Intestine Large	intestine
3	chr4:100538200-100556000	Weak transcription	Fetal Muscle Leg	muscle
4	chr4:100541800-100547200	Weak transcription	Small Intestine	intestine
5	chr4:100542800-100546800	Enhancers	Fetal Lung	lung
6	chr4:100544000-100551600	Weak transcription	Fetal Intestine Small	intestine
7	chr4:100544000-100553200	Weak transcription	Psoas Muscle	Psoas
8	chr4:100544200-100547200	Weak transcription	HepG2	liver
9	chr4:100545000-100545800	Strong transcription	Duodenum Mucosa	Duodenum
10	chr4:100545200-100545800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr4:100545200-100545800	Enhancers	Aorta	Aorta
12	chr4:100545200-100546000	Enhancers	HUES48 Cell Line	embryonic stem cell
13	chr4:100545200-100546000	Enhancers	iPS-15b Cell Line	embryonic stem cell
14	chr4:100545200-100546000	Enhancers	iPS-20b Cell Line	embryonic stem cell
15	chr4:100545200-100546200	Enhancers	iPS-18 Cell Line	embryonic stem cell
16	chr4:100545200-100546200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
17	chr4:100545200-100546200	Enhancers	Fetal Stomach	stomach
18	chr4:100545200-100546200	Enhancers	Ovary	ovary
19	chr4:100545200-100546200	Enhancers	Rectal Smooth Muscle	rectum
20	chr4:100545200-100546200	Enhancers	Stomach Smooth Muscle	stomach
21	chr4:100545200-100546400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
22	chr4:100545200-100546400	Enhancers	HUES64 Cell Line	embryonic stem cell
23	chr4:100545200-100546800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr4:100545200-100546800	Enhancers	Cortex derived primary cultured neurospheres	brain
25	chr4:100545400-100545800	Enhancers	HUES6 Cell Line	embryonic stem cell
26	chr4:100545400-100545800	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
27	chr4:100545400-100545800	Enhancers	Left Ventricle	heart
28	chr4:100545400-100545800	Enhancers	Right Atrium	heart
29	chr4:100545400-100546000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
30	chr4:100545400-100546000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
31	chr4:100545400-100546200	Enhancers	H1 Cell Line	embryonic stem cell
32	chr4:100545400-100546200	Enhancers	Skeletal Muscle Female	skeletal muscle
33	chr4:100545400-100546800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
34	chr4:100545400-100546800	Enhancers	Colon Smooth Muscle	Colon
35	chr4:100545600-100546000	Enhancers	ES-WA7 Cell Line	embryonic stem cell
36	chr4:100545600-100546000	Enhancers	Skeletal Muscle Male	skeletal muscle

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