Variant report

Variant	rs55741829
Chromosome Location	chr19:38961534-38961535
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr19:38956967..38959332-chr19:38960249..38961866,2	K562	blood:
2	chr19:38892058..38894456-chr19:38960060..38961640,2	K562	blood:

Variant related genes	Relation type
ENSG00000130244	Chromatin interaction

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10406027	1.00[ASN][1000 genomes]
rs11083461	1.00[ASN][1000 genomes]
rs16972685	1.00[ASN][1000 genomes]
rs17707979	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17708009	0.93[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs2228068	0.93[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs34370689	1.00[ASN][1000 genomes]
rs35364374	1.00[ASN][1000 genomes]
rs4802446	1.00[ASN][1000 genomes]
rs4802469	1.00[ASN][1000 genomes]
rs55845760	0.93[EUR][1000 genomes]
rs56081639	0.83[EUR][1000 genomes]
rs56082081	0.85[EUR][1000 genomes]
rs56278664	0.93[EUR][1000 genomes]
rs56356303	0.85[EUR][1000 genomes]
rs56363218	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56373685	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7246023	0.93[EUR][1000 genomes]
rs7250476	1.00[ASN][1000 genomes]
rs7254832	1.00[ASN][1000 genomes]
rs7258075	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7259884	0.90[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1063471	chr19:38734744-39148392	Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Genic enhancers Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	73 gene(s)	inside rSNPs	diseases
2	nsv911658	chr19:38785318-39002140	Genic enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Bivalent/Poised TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	55 gene(s)	inside rSNPs	diseases
3	nsv470140	chr19:38840139-39119494	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
4	nsv911659	chr19:38852357-39002140	Active TSS Bivalent/Poised TSS Enhancers Flanking Active TSS Strong transcription Genic enhancers Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	36 gene(s)	inside rSNPs	diseases
5	nsv911660	chr19:38852357-39060238	Flanking Active TSS Bivalent Enhancer Active TSS Enhancers Strong transcription Weak transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	41 gene(s)	inside rSNPs	diseases
6	nsv833823	chr19:38855550-39035800	Weak transcription Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	39 gene(s)	inside rSNPs	diseases
7	nsv911663	chr19:38899548-39101879	Strong transcription Active TSS Flanking Active TSS Enhancers Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
8	nsv833824	chr19:38914618-39084758	Weak transcription Enhancers Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Strong transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
9	esv1816081	chr19:38919971-39050479	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
10	nsv911664	chr19:38924814-39048163	Enhancers Weak transcription Genic enhancers Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
11	nsv911665	chr19:38924814-39101879	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
12	nsv833826	chr19:38945106-39184547	Strong transcription Genic enhancers Enhancers Weak transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	37 gene(s)	inside rSNPs	diseases
13	nsv911666	chr19:38948356-39014184	Enhancers Strong transcription Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 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	chr19:38929800-38984400	Weak transcription	Psoas Muscle	Psoas
2	chr19:38930200-38978800	Weak transcription	Brain Substantia Nigra	brain
3	chr19:38934800-39005600	Strong transcription	Fetal Muscle Leg	muscle
4	chr19:38936200-38980800	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr19:38936800-38963200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr19:38938600-38987600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr19:38940000-39006400	Weak transcription	HSMM	muscle
8	chr19:38947600-38997400	Strong transcription	Fetal Muscle Trunk	muscle
9	chr19:38947800-38961800	Strong transcription	HSMMtube	muscle
10	chr19:38951200-38980400	Weak transcription	Right Atrium	heart
11	chr19:38954800-38961800	Strong transcription	H1 Cell Line	embryonic stem cell
12	chr19:38955200-38962000	Strong transcription	HUES48 Cell Line	embryonic stem cell
13	chr19:38956600-38962000	Strong transcription	HUES64 Cell Line	embryonic stem cell
14	chr19:38956800-38961800	Strong transcription	H9 Cell Line	embryonic stem cell
15	chr19:38957000-38975800	Weak transcription	Brain Anterior Caudate	brain
16	chr19:38958600-38965800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
17	chr19:38958600-38978600	Weak transcription	Gastric	stomach
18	chr19:38959000-38963000	Genic enhancers	Skeletal Muscle Male	skeletal muscle
19	chr19:38960400-38994600	Weak transcription	Brain Angular Gyrus	brain
20	chr19:38960800-38963800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
21	chr19:38960800-38964000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
22	chr19:38960800-39034400	Strong transcription	Skeletal Muscle Female	skeletal muscle
23	chr19:38961200-38961800	Strong transcription	iPS-18 Cell Line	embryonic stem cell
24	chr19:38961200-38961800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
25	chr19:38961400-38961800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr19:38961400-38961800	Enhancers	HUES6 Cell Line	embryonic stem cell
27	chr19:38961400-38961800	Genic enhancers	ES-UCSF4 Cell Line	embryonic stem cell
28	chr19:38961400-38962000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
29	chr19:38961400-38962200	Enhancers	ES-I3 Cell Line	embryonic stem cell

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