Variant report

Variant	rs4741727
Chromosome Location	chr9:2521103-2521104
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-KIAA0020-1	chr9:2520904-2521129	l_3727_chr9:2411588-2611526_ovary

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs10966860	0.84[ASN][1000 genomes]
rs12236736	0.85[ASN][1000 genomes]
rs1512710	0.85[ASN][1000 genomes]
rs1512711	0.85[ASN][1000 genomes]
rs1512712	0.84[ASN][1000 genomes]
rs4531103	0.85[ASN][1000 genomes]
rs4740692	0.85[ASN][1000 genomes]
rs4740693	0.83[ASN][1000 genomes]
rs4741729	0.83[ASN][1000 genomes]
rs496896	0.82[ASN][1000 genomes]
rs601170	0.81[ASN][1000 genomes]
rs7021915	0.83[ASN][1000 genomes]
rs7022037	0.83[ASN][1000 genomes]
rs7033562	0.85[ASN][1000 genomes]
rs7038346	0.83[ASN][1000 genomes]
rs7041816	0.83[ASN][1000 genomes]
rs7048541	0.85[ASN][1000 genomes]
rs7855489	0.83[ASN][1000 genomes]
rs7869130	0.83[ASN][1000 genomes]
rs7869275	0.83[ASN][1000 genomes]
rs7870396	0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:15 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1020530	chr9:1870197-2658587	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
2	nsv530929	chr9:1998911-2925112	Active TSS Weak transcription Strong transcription Flanking Active TSS Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
3	nsv466078	chr9:2218129-2621030	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	nsv613126	chr9:2218129-2621030	Enhancers Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
5	nsv529508	chr9:2267812-2684272	Bivalent/Poised TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
6	nsv466081	chr9:2353522-2596783	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
7	nsv613132	chr9:2353522-2596783	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
8	nsv892066	chr9:2397564-2589739	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
9	nsv1020479	chr9:2407980-2528346	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
10	nsv539933	chr9:2407980-2528346	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
11	nsv916750	chr9:2430846-2826706	Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Weak transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
12	nsv531564	chr9:2452325-2700375	Flanking Bivalent TSS/Enh Weak transcription Enhancers ZNF genes & repeats Strong transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
13	nsv1017581	chr9:2494815-3172020	Enhancers Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
14	nsv539934	chr9:2494815-3172020	Strong transcription Weak transcription Enhancers Genic enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
15	nsv1033424	chr9:2508296-2575408	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:2487400-2533400	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr9:2493400-2529000	Weak transcription	Pancreas	Pancrea
3	chr9:2503400-2541000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr9:2506600-2528800	Weak transcription	Left Ventricle	heart
5	chr9:2506600-2559200	Weak transcription	Adipose Nuclei	Adipose
6	chr9:2517600-2522200	Weak transcription	Brain Angular Gyrus	brain
7	chr9:2519000-2524200	Weak transcription	Brain Inferior Temporal Lobe	brain
8	chr9:2519400-2521200	Weak transcription	Right Ventricle	heart
9	chr9:2520200-2522200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr9:2520200-2523600	Weak transcription	Aorta	Aorta
11	chr9:2520400-2537400	Weak transcription	HUES64 Cell Line	embryonic stem cell
12	chr9:2520600-2521400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
13	chr9:2520800-2521400	ZNF genes & repeats	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr9:2520800-2522000	ZNF genes & repeats	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr9:2521000-2521200	Strong transcription	H1 Cell Line	embryonic stem cell
16	chr9:2521000-2521800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
17	chr9:2521000-2522200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr9:2521000-2522600	Strong transcription	Ovary	ovary
19	chr9:2521000-2523600	Weak transcription	Fetal Muscle Leg	muscle

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