Variant report

Variant	rs55739456
Chromosome Location	chr6:143570454-143570455
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:143565573..143568221-chr6:143568963..143571778,2	MCF-7	breast:
2	chr6:143491869..143493964-chr6:143569722..143572485,2	K562	blood:
3	chr6:143568655..143572983-chr6:143580340..143584023,4	K562	blood:
4	chr6:143380054..143383322-chr6:143570355..143572889,3	K562	blood:
5	chr6:143553948..143556735-chr6:143570226..143572984,2	K562	blood:

Variant related genes	Relation type
ENSG00000146416	Chromatin interaction

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs17530336	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs55918821	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs56162220	0.85[AMR][1000 genomes]
rs56250922	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs62429647	0.85[AMR][1000 genomes]
rs62430867	0.91[AFR][1000 genomes]
rs62430871	0.86[AFR][1000 genomes]
rs62430878	0.82[AFR][1000 genomes]
rs9376730	0.85[AMR][1000 genomes]
rs9376731	0.85[AMR][1000 genomes]
rs9390073	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9403466	0.85[AMR][1000 genomes]
rs9496552	0.88[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	nsv981344	chr6:143566840-143579617	Strong transcription Active TSS ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:143527400-143578800	Weak transcription	Brain Hippocampus Middle	brain
2	chr6:143545400-143588800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr6:143546000-143576200	Weak transcription	HepG2	liver
4	chr6:143546200-143571200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr6:143554200-143581400	Weak transcription	Psoas Muscle	Psoas
6	chr6:143557600-143574000	Weak transcription	Left Ventricle	heart
7	chr6:143557600-143575200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr6:143562600-143574200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
9	chr6:143562600-143579000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr6:143563400-143577200	Weak transcription	Fetal Muscle Leg	muscle
11	chr6:143563400-143579800	Weak transcription	Duodenum Smooth Muscle	Duodenum
12	chr6:143564200-143583000	Weak transcription	Pancreas	Pancrea
13	chr6:143565200-143573800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr6:143565200-143579400	Weak transcription	Ovary	ovary
15	chr6:143565600-143578200	Weak transcription	Esophagus	oesophagus
16	chr6:143566200-143574600	Weak transcription	Brain Inferior Temporal Lobe	brain
17	chr6:143567600-143571200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr6:143568000-143578000	Weak transcription	K562	blood
19	chr6:143568200-143571000	Weak transcription	Fetal Intestine Small	intestine
20	chr6:143568600-143571400	Weak transcription	Pancreatic Islets	Pancreatic Islet
21	chr6:143569000-143592000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
22	chr6:143569200-143586600	Weak transcription	Stomach Smooth Muscle	stomach
23	chr6:143569600-143573200	Strong transcription	Liver	Liver
24	chr6:143569600-143588600	Weak transcription	Aorta	Aorta
25	chr6:143570000-143581600	Weak transcription	NHEK	skin
26	chr6:143570200-143570600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
27	chr6:143570200-143571000	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
28	chr6:143570400-143570800	Strong transcription	Fetal Intestine Large	intestine
29	chr6:143570400-143571400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin

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