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mmu_circWdsub1_869
Basic information of circular RNA
PanCircBase ID:
mmu_circWdsub1_869
mm39_Chr. Position ID:
chr2|59688953|59707195|-
Gene name:
Wdsub1
Transcript:
ENSMUST00000028368.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
10,9,8,7,6,5,4,3
Exon/intron offsets:
0,2951,4010,4207,5692,14606,15629,18057
Genomic length:
18242
Exon/intron sizes in nt:
1,41,17,71,07,41,34,94,00,000
Flanking exon/introns:
chr2:59683305-59688953|chr2:59707195-59708473
Splice length:
869
Other database IDs:
circAtlas: mmu-Wdsub1_0006
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_163871
Human Ortholog IDs:
Mature spliced Sequence:
GTGTGGTAGTGTCAAGGATAGCTCATTGGTGGCCTGTGCGTTTTCTCCCGATGGAGGCCTCTTTGTCACTGGCTCCTCGGGCGGGGACTTGACAGTGTGGGATGACAGAATGAGGTGTCTACACAGCGAGAAGGCGCACGATCTCGGGATCACCTGCTGCAGCTTTTCCTCACAGCCTCTCTCTGGCGGAGAAGGCCTCCAGTCTTACCAGTTGGCGTCATGTGGTCAAGACTGTGAAATCAAACTCTGGGCTGTTACTATTACCCGTGTCTTAGGCTTTGAATTAAAATATAAAAGCACACTAAGTGGGCACTGCGCCCCTGTTCTGGCCTGTGCTTTTTCACATGATGGAAAGATGCTTGCATCGGGGTCAGTGGATAAATCTGTCATCATACATGGTATCGGCCCTCAGAGTGTGCTACACACGCTGACTCAGCATACCAGGTATGTTACGACTTGTGCGTTTGCACCCAACACTCTCTTACTTGCTACTGGTTCAATGGACAAGACAGTGAACATTTGGCAGTTTGACCTGGAAACACCTTGCCAAGGAAGCATGAACGACCCGCTGAAACATTTCACTGAAGAATGGTCAGAGGAGGATGTCTCCGTGTGGCTTCGTGCTCAAGGCTTGGAAGACCTCGTCGGTATTTTCAGGGCAAACAACATCGATGGGAAAGAACTATTGCATCTCACAAAGGAAAGTCTGGCTGGTGATTTGAAAATCGAATCTCTAGGGCTGCGCAGCAAAGTCCTGAGGAGTATTGAAGAGCTCAGGGCCAAGATGGATTCCCTCTCTTCCGGAATCCCTGACGAGTTCATCTGCCCAATAACCAGAGAACTCATGAAGGACCCCGTCATCGCATCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTTCCGGAATCCCTGACGAG
59.9
TGACAAAGAGGCCTCCATCG
59.75
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTCTTCCGGAATCCCTGACG
59.9
TGACAAAGAGGCCTCCATCG
59.75
142
PCR template sequence:
GAGCTCAGGGCCAAGATGGATTCCCTCTCTTCCGGAATCCCTGACGAGTTCATCTGCCCAATAACCAGAGAACTCATGAAGGACCCCGTCATCGCATCAGGTGTGGTAGTGTCAAGGATAGCTCATTGGTGGCCTGTGCGTTTTCTCCCGATGGAGGCCTCTTTGTCACTGGCTCCTCGGGCGGGGACTTGACAGTGTGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-541-5p(2), mmu-miR-19b-3p(1), mmu-miR-203-3p(1), mmu-miR-125a-5p(1), mmu-miR-96-5p(1), mmu-miR-5101(1)
siRNAs for circular RNA silencing
Junction sequence
GTCATCGCATCAGGTGTGGTAGTGTC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCWDSUB1_869_ORF_1
0.7341
0.085692661
0.929568817
852
ORF sequence:
ATGAGGTGTCTACACAGCGAGAAGGCGCACGATCTCGGGATCACCTGCTGCAGCTTTTCCTCACAGCCTCTCTCTGGCGGAGAAGGCCTCCAGTCTTACCAGTTGGCGTCATGTGGTCAAGACTGTGAAATCAAACTCTGGGCTGTTACTATTACCCGTGTCTTAGGCTTTGAATTAAAATATAAAAGCACACTAAGTGGGCACTGCGCCCCTGTTCTGGCCTGTGCTTTTTCACATGATGGAAAGATGCTTGCATCGGGGTCAGTGGATAAATCTGTCATCATACATGGTATCGGCCCTCAGAGTGTGCTACACACGCTGACTCAGCATACCAGGTATGTTACGACTTGTGCGTTTGCACCCAACACTCTCTTACTTGCTACTGGTTCAATGGACAAGACAGTGAACATTTGGCAGTTTGACCTGGAAACACCTTGCCAAGGAAGCATGAACGACCCGCTGAAACATTTCACTGAAGAATGGTCAGAGGAGGATGTCTCCGTGTGGCTTCGTGCTCAAGGCTTGGAAGACCTCGTCGGTATTTTCAGGGCAAACAACATCGATGGGAAAGAACTATTGCATCTCACAAAGGAAAGTCTGGCTGGTGATTTGAAAATCGAATCTCTAGGGCTGCGCAGCAAAGTCCTGAGGAGTATTGAAGAGCTCAGGGCCAAGATGGATTCCCTCTCTTCCGGAATCCCTGACGAGTTCATCTGCCCAATAACCAGAGAACTCATGAAGGACCCCGTCATCGCATCAGGTGTGGTAGTGTCAAGGATAGCTCATTGGTGGCCTGTGCGTTTTCTCCCGATGGAGGCCTCTTTGTCACTGGCTCCTCGGGCGGGGACTTGA
Peptide sequence:
MRCLHSEKAHDLGITCCSFSSQPLSGGEGLQSYQLASCGQDCEIKLWAVTITRVLGFELKYKSTLSGHCAPVLACAFSHDGKMLASGSVDKSVIIHGIGPQSVLHTLTQHTRYVTTCAFAPNTLLLATGSMDKTVNIWQFDLETPCQGSMNDPLKHFTEEWSEEDVSVWLRAQGLEDLVGIFRANNIDGKELLHLTKESLAGDLKIESLGLRSKVLRSIEELRAKMDSLSSGIPDEFICPITRELMKDPVIASGVVVSRIAHWWPVRFLPMEASLSLAPRAGT
IRESfinder result
IRESfinder score
0.626033836
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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