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mmu_circArhgap21_1197
Basic information of circular RNA
PanCircBase ID:
mmu_circArhgap21_1197
mm39_Chr. Position ID:
chr2|20860164|20868175|-
Gene name:
Arhgap21
Transcript:
ENSMUST00000154230.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
22,21,20,19,18,17,16,15,14,13
Exon/intron offsets:
0,227,3547,3713,4364,4527,4950,5617,5832,7726
Genomic length:
8011
Exon/intron sizes in nt:
42,12,69,07,47,91,56,10,00,00,00,000
Flanking exon/introns:
chr2:20859851-20860164|chr2:20868175-20870075
Splice length:
1197
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
AGAGTTGGTGGCAGTATTCGGCCATGGAAACAGATGTATGTTGTCCTTCGGGGCCACTCACTTTACTTGTACAAAGACAGAAGAGAGCAGACAACGCCATCAGAAGAAGAGCAGCCCATCAGTGTCAACGCTTGCCTGATAGACATCTCGTACAGTGAGACCAAGAGGCGGAATGTATTCCGACTTACCACGTCTGACTGTGAATGCTTGTTCCAGGCTGAAGACAGAGATGATATGTTATCATGGATCAAGACTATTCAGGAAAGTAGCAACCTAAATGAAGAGGACACTGGAGTTACCAACAGAGATCTAATTAGTCGAAGAATCAAAGAGTATAACAGTCTGCTGAGCAAAACAGAACAGTTGCCAAAAACACCTCGCCAGAGTCTTAGCATCAGGCAAACTTTGCTTGGTGCTAAATCAGAGCCAAAGACTCAAAGCCCACATTCTCCAAAGGAGGAGTCCGAGAGGAAGCTTCTCAGTAAAGATGATACCAGTCCCCCTAAAGACAAAGGTACTTGGAGAAGAGGCATTCCAAGCATCGTGAGGAAGACGTTTGAGAAAAAGCCGGCCGCCACAGGGACCTTTGGAGTTAGGCTGGATGACTGCCCACCCGCCCACACCAACAGGTACATTCCATTAATCGTTGACATATGTTGCAAATTAGTTGAAGAAAGGGGTCTTGAATATACAGGTATTTACCGAGTTCCCGGCAACAACGCAGCCATTTCAAGCATGCAGGAAGAACTCAACAAGGGGATGGCAGACATTGACATACAAGATGATAAATGGCGAGATTTGAATGTGATAAGCAGTTTACTAAAATCCTTCTTCAGAAAGCTCCCTGAGCCTCTCTTTACGAATGACAAATATGCTGACTTCATTGAGGCCAATCGCAAAGAGGACCCACTGGATCGGCTACGAACATTAAAGAGACTAATTCATGACCTGCCTGAGCATCATTTTGAGACGCTCAAGTTTCTCTCGGCTCATCTGAAGACAGTGGCAGAGAACTCAGAAAAGAATAAGATGGAACCCAGAAACCTAGCGATCGTTTTTGGTCCAACTCTAGTGAGAACATCAGAAGACAACATGACCCACATGGTCACGCACATGCCTGACCAGTATAAGATCGTAGAGACTCTCATCCAGCATCATGACTGGTTTTTCACAGAAGAAGGTGCCGAAGAGCCTCTT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGCACATGCCTGACCAGTAT
60.46
GTAAAGTGAGTGGCCCCGAA
59.96
155
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGCACATGCCTGACCAGTAT
60.46
AAGTAAAGTGAGTGGCCCCG
59.96
157
PCR template sequence:
CCACATGGTCACGCACATGCCTGACCAGTATAAGATCGTAGAGACTCTCATCCAGCATCATGACTGGTTTTTCACAGAAGAAGGTGCCGAAGAGCCTCTTAGAGTTGGTGGCAGTATTCGGCCATGGAAACAGATGTATGTTGTCCTTCGGGGCCACTCACTTTACTTGTACAAAGACAGAAGAGAGCAGACAACGCCAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
14
Interacting miRNAs (#binding sites)
mmu-miR-206-3p(1), mmu-miR-200b-3p(1), mmu-miR-181a-5p(1), mmu-miR-200c-3p(1), mmu-miR-382-3p(1), mmu-miR-96-5p(1), mmu-miR-499-5p(1), mmu-miR-325-3p(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-466p-5p(1), mmu-miR-669d-5p(1), mmu-miR-3105-3p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CGAAGAGCCTCTTAGAGTTGGTGGCA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARHGAP21_1197_ORF_1
0.9942
0.208994682
0.999999466
2361
ORF sequence:
ATGTATGTTGTCCTTCGGGGCCACTCACTTTACTTGTACAAAGACAGAAGAGAGCAGACAACGCCATCAGAAGAAGAGCAGCCCATCAGTGTCAACGCTTGCCTGATAGACATCTCGTACAGTGAGACCAAGAGGCGGAATGTATTCCGACTTACCACGTCTGACTGTGAATGCTTGTTCCAGGCTGAAGACAGAGATGATATGTTATCATGGATCAAGACTATTCAGGAAAGTAGCAACCTAAATGAAGAGGACACTGGAGTTACCAACAGAGATCTAATTAGTCGAAGAATCAAAGAGTATAACAGTCTGCTGAGCAAAACAGAACAGTTGCCAAAAACACCTCGCCAGAGTCTTAGCATCAGGCAAACTTTGCTTGGTGCTAAATCAGAGCCAAAGACTCAAAGCCCACATTCTCCAAAGGAGGAGTCCGAGAGGAAGCTTCTCAGTAAAGATGATACCAGTCCCCCTAAAGACAAAGGTACTTGGAGAAGAGGCATTCCAAGCATCGTGAGGAAGACGTTTGAGAAAAAGCCGGCCGCCACAGGGACCTTTGGAGTTAGGCTGGATGACTGCCCACCCGCCCACACCAACAGGTACATTCCATTAATCGTTGACATATGTTGCAAATTAGTTGAAGAAAGGGGTCTTGAATATACAGGTATTTACCGAGTTCCCGGCAACAACGCAGCCATTTCAAGCATGCAGGAAGAACTCAACAAGGGGATGGCAGACATTGACATACAAGATGATAAATGGCGAGATTTGAATGTGATAAGCAGTTTACTAAAATCCTTCTTCAGAAAGCTCCCTGAGCCTCTCTTTACGAATGACAAATATGCTGACTTCATTGAGGCCAATCGCAAAGAGGACCCACTGGATCGGCTACGAACATTAAAGAGACTAATTCATGACCTGCCTGAGCATCATTTTGAGACGCTCAAGTTTCTCTCGGCTCATCTGAAGACAGTGGCAGAGAACTCAGAAAAGAATAAGATGGAACCCAGAAACCTAGCGATCGTTTTTGGTCCAACTCTAGTGAGAACATCAGAAGACAACATGACCCACATGGTCACGCACATGCCTGACCAGTATAAGATCGTAGAGACTCTCATCCAGCATCATGACTGGTTTTTCACAGAAGAAGGTGCCGAAGAGCCTCTTAGAGTTGGTGGCAGTATTCGGCCATGGAAACAGATGTATGTTGTCCTTCGGGGCCACTCACTTTACTTGTACAAAGACAGAAGAGAGCAGACAACGCCATCAGAAGAAGAGCAGCCCATCAGTGTCAACGCTTGCCTGATAGACATCTCGTACAGTGAGACCAAGAGGCGGAATGTATTCCGACTTACCACGTCTGACTGTGAATGCTTGTTCCAGGCTGAAGACAGAGATGATATGTTATCATGGATCAAGACTATTCAGGAAAGTAGCAACCTAAATGAAGAGGACACTGGAGTTACCAACAGAGATCTAATTAGTCGAAGAATCAAAGAGTATAACAGTCTGCTGAGCAAAACAGAACAGTTGCCAAAAACACCTCGCCAGAGTCTTAGCATCAGGCAAACTTTGCTTGGTGCTAAATCAGAGCCAAAGACTCAAAGCCCACATTCTCCAAAGGAGGAGTCCGAGAGGAAGCTTCTCAGTAAAGATGATACCAGTCCCCCTAAAGACAAAGGTACTTGGAGAAGAGGCATTCCAAGCATCGTGAGGAAGACGTTTGAGAAAAAGCCGGCCGCCACAGGGACCTTTGGAGTTAGGCTGGATGACTGCCCACCCGCCCACACCAACAGGTACATTCCATTAATCGTTGACATATGTTGCAAATTAGTTGAAGAAAGGGGTCTTGAATATACAGGTATTTACCGAGTTCCCGGCAACAACGCAGCCATTTCAAGCATGCAGGAAGAACTCAACAAGGGGATGGCAGACATTGACATACAAGATGATAAATGGCGAGATTTGAATGTGATAAGCAGTTTACTAAAATCCTTCTTCAGAAAGCTCCCTGAGCCTCTCTTTACGAATGACAAATATGCTGACTTCATTGAGGCCAATCGCAAAGAGGACCCACTGGATCGGCTACGAACATTAAAGAGACTAATTCATGACCTGCCTGAGCATCATTTTGAGACGCTCAAGTTTCTCTCGGCTCATCTGAAGACAGTGGCAGAGAACTCAGAAAAGAATAAGATGGAACCCAGAAACCTAGCGATCGTTTTTGGTCCAACTCTAGTGAGAACATCAGAAGACAACATGACCCACATGGTCACGCACATGCCTGACCAGTATAAGATCGTAGAGACTCTCATCCAGCATCATGACTGGTTTTTCACAGAAGAAGGTGCCGAAGAGCCTCTT
Peptide sequence:
MYVVLRGHSLYLYKDRREQTTPSEEEQPISVNACLIDISYSETKRRNVFRLTTSDCECLFQAEDRDDMLSWIKTIQESSNLNEEDTGVTNRDLISRRIKEYNSLLSKTEQLPKTPRQSLSIRQTLLGAKSEPKTQSPHSPKEESERKLLSKDDTSPPKDKGTWRRGIPSIVRKTFEKKPAATGTFGVRLDDCPPAHTNRYIPLIVDICCKLVEERGLEYTGIYRVPGNNAAISSMQEELNKGMADIDIQDDKWRDLNVISSLLKSFFRKLPEPLFTNDKYADFIEANRKEDPLDRLRTLKRLIHDLPEHHFETLKFLSAHLKTVAENSEKNKMEPRNLAIVFGPTLVRTSEDNMTHMVTHMPDQYKIVETLIQHHDWFFTEEGAEEPLRVGGSIRPWKQMYVVLRGHSLYLYKDRREQTTPSEEEQPISVNACLIDISYSETKRRNVFRLTTSDCECLFQAEDRDDMLSWIKTIQESSNLNEEDTGVTNRDLISRRIKEYNSLLSKTEQLPKTPRQSLSIRQTLLGAKSEPKTQSPHSPKEESERKLLSKDDTSPPKDKGTWRRGIPSIVRKTFEKKPAATGTFGVRLDDCPPAHTNRYIPLIVDICCKLVEERGLEYTGIYRVPGNNAAISSMQEELNKGMADIDIQDDKWRDLNVISSLLKSFFRKLPEPLFTNDKYADFIEANRKEDPLDRLRTLKRLIHDLPEHHFETLKFLSAHLKTVAENSEKNKMEPRNLAIVFGPTLVRTSEDNMTHMVTHMPDQYKIVETLIQHHDWFFTEEGAEEPL
IRESfinder result
IRESfinder score
0.449244801
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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