Variant report

Variant	rs55918025
Chromosome Location	chr5:126689935-126689936
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs11746512	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17165037	0.82[EUR][1000 genomes]
rs17165041	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17673147	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17673170	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17839696	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56096254	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56144110	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72786494	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72786500	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72788505	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72788513	1.00[AMR][1000 genomes];0.98[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	nsv1024265	chr5:126213004-126691163	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
2	nsv1033607	chr5:126385181-127304459	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
3	nsv1019821	chr5:126658200-126934917	Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
4	nsv537894	chr5:126658200-126934917	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:126663400-126690200	Weak transcription	Fetal Brain Male	brain
2	chr5:126677000-126690200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr5:126678800-126690400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr5:126679200-126690000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr5:126679200-126694000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
6	chr5:126681400-126693400	Weak transcription	HUES48 Cell Line	embryonic stem cell
7	chr5:126681800-126693600	Weak transcription	HUES64 Cell Line	embryonic stem cell
8	chr5:126681800-126693600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
9	chr5:126687600-126690600	Weak transcription	H1 Cell Line	embryonic stem cell
10	chr5:126687800-126693800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr5:126688200-126691000	Enhancers	Fetal Muscle Trunk	muscle
12	chr5:126688200-126691400	Enhancers	Brain Substantia Nigra	brain
13	chr5:126688200-126692200	Enhancers	Cortex derived primary cultured neurospheres	brain
14	chr5:126688400-126690800	Enhancers	Brain Anterior Caudate	brain
15	chr5:126688400-126691400	Enhancers	Brain Cingulate Gyrus	brain
16	chr5:126688400-126692400	Enhancers	Fetal Muscle Leg	muscle
17	chr5:126688400-126692600	Enhancers	Brain Angular Gyrus	brain
18	chr5:126688400-126692600	Enhancers	Brain Inferior Temporal Lobe	brain
19	chr5:126689000-126690800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
20	chr5:126689000-126690800	Enhancers	Duodenum Mucosa	Duodenum
21	chr5:126689000-126691400	Enhancers	Muscle Satellite Cultured Cells	--
22	chr5:126689000-126692200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
23	chr5:126689200-126690000	Enhancers	Fetal Intestine Small	intestine
24	chr5:126689200-126690200	Enhancers	Fetal Intestine Large	intestine
25	chr5:126689400-126692200	Enhancers	Brain Hippocampus Middle	brain
26	chr5:126689600-126690000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
27	chr5:126689600-126690000	Enhancers	Liver	Liver
28	chr5:126689600-126692800	Enhancers	HSMMtube	muscle
29	chr5:126689600-126693800	Enhancers	HSMM	muscle
30	chr5:126689800-126694200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain

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