Variant report

Variant	rs3798821
Chromosome Location	chr6:55738252-55738253
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs10485079	0.96[AMR][1000 genomes]
rs12660631	0.85[AMR][1000 genomes]
rs12662574	0.82[AMR][1000 genomes]
rs1447130	0.82[AMR][1000 genomes]
rs16887320	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16887333	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16887397	0.85[AMR][1000 genomes]
rs16887398	0.85[AMR][1000 genomes]
rs16887399	0.85[AMR][1000 genomes]
rs16887402	0.85[AMR][1000 genomes]
rs17736107	0.96[AMR][1000 genomes]
rs2197643	0.85[AMR][1000 genomes]
rs6931303	0.85[AMR][1000 genomes]
rs9475448	0.82[AMR][1000 genomes]
rs9475451	0.82[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1034037	chr6:55222409-56069600	Enhancers Strong transcription Weak transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Active TSS ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	esv2752670	chr6:55614978-55781605	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv1032684	chr6:55680473-55766876	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	nsv1024174	chr6:55713889-55829936	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
5	nsv1029301	chr6:55713889-55834480	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:55733200-55739000	Weak transcription	Fetal Kidney	kidney
2	chr6:55733600-55740800	Active TSS	Pancreatic Islets	Pancreatic Islet
3	chr6:55733600-55740800	Active TSS	Fetal Muscle Leg	muscle
4	chr6:55734200-55739200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr6:55734200-55740000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr6:55734200-55740600	Active TSS	Fetal Lung	lung
7	chr6:55734600-55740600	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr6:55734600-55741600	Active TSS	Rectal Mucosa Donor 29	rectum
9	chr6:55734800-55740000	Weak transcription	A549	lung
10	chr6:55735000-55739000	Weak transcription	Fetal Intestine Small	intestine
11	chr6:55735000-55740400	Active TSS	Breast Myoepithelial Primary Cells	Breast
12	chr6:55735200-55738800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr6:55735600-55740400	Active TSS	Fetal Intestine Large	intestine
14	chr6:55736200-55740400	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
15	chr6:55736400-55739000	Active TSS	Fetal Heart	heart
16	chr6:55736400-55740200	Active TSS	Fetal Stomach	stomach
17	chr6:55736400-55740400	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr6:55736400-55740400	Active TSS	Placenta	Placenta
19	chr6:55736600-55738800	Active TSS	HUES64 Cell Line	embryonic stem cell
20	chr6:55736600-55740200	Active TSS	Duodenum Mucosa	Duodenum
21	chr6:55737200-55739200	Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
22	chr6:55737600-55739400	Active TSS	HUES6 Cell Line	embryonic stem cell
23	chr6:55737800-55739600	Active TSS	Rectal Mucosa Donor 31	rectum
24	chr6:55738000-55739000	Weak transcription	Hela-S3	cervix

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