Variant report

Variant	rs35960404
Chromosome Location	chr9:13927980-13927981
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-C9orf146-4	chr9:13927970-13928060	NR_038194
2	lnc-C9orf146-4	chr9:13927970-13928060	ENSG00000205636.3

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10810058	0.92[AMR][1000 genomes];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13283645	0.90[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs13284780	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs13285663	0.86[ASN][1000 genomes]
rs13286204	0.92[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs13291088	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13292270	0.92[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs13292571	0.92[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs13298062	0.92[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs13299074	0.92[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs13299961	0.92[AMR][1000 genomes]
rs17192194	0.92[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs17277467	0.92[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs17277593	0.92[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs34602246	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34660040	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34764349	0.92[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs35165583	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35246532	0.94[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs35249758	0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs35377705	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35684545	0.92[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs35727886	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35907479	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35911657	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71511071	0.92[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs71511072	0.87[AMR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1022001	chr9:13717736-13983738	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv1033764	chr9:13764918-14226168	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv613635	chr9:13893246-13961462	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:13916000-13932800	Weak transcription	Psoas Muscle	Psoas
2	chr9:13924200-13938000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr9:13924800-13932400	Weak transcription	Fetal Muscle Leg	muscle
4	chr9:13926600-13929000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr9:13926800-13929800	Weak transcription	Breast Myoepithelial Primary Cells	Breast

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