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mmu_circArhgap29_771
Basic information of circular RNA
PanCircBase ID:
mmu_circArhgap29_771
mm39_Chr. Position ID:
chr3|121783957|121787366|+
Gene name:
Arhgap29
Transcript:
ENSMUST00000037958.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
6,7,8,9,10,11,12
Exon/intron offsets:
0,676,1553,2025,2224,2433,3271
Genomic length:
3409
Exon/intron sizes in nt:
4,91,38,65,11,18,11,89,000
Flanking exon/introns:
chr3:121782633-121783957|chr3:121787366-121796190
Splice length:
771
Other database IDs:
circAtlas: hsa-ARHGAP29_0018
Human Ortholog IDs:
Mature spliced Sequence:
TCTTTTGAAAACATTTCTGTGGACTCAGTGGACTTACCCCATGAAAAAGGAAATTTTTCTCCTATAGAACTAGACAACTTGCTGTTAAAGAACACTGACTCTATAGAGCTGGCTTTGTCCTATGCTAAAACATGGTCAAAATATACCAAGAATATAGTGTCGTGGGTTGAAAAAAAGCTCAACTTGGAATTGGAGTCCACTAGAAATATTGTAAAATTGGCAGAGGCAACTAGATCTAGCATTGGTATACAAGAGTTTATGCCACTGCAGTCTCTATTTACCAACGCTCTTCTCAGTGACATCCACAGCAGCCACCTTCTACAACAGACAATTGCAGCCCTCCAAGCCAATAAATTTGTGCAGCCTCTACTTGGGAGGAAGAATGAGATGGAGAAGCAAAGGAAAGAAATAAAAGACCTTTGGAAGCAGCAACAGAATAAATTGCTCGAAACAGAGACAGCTCTCAAAAAAGCAAAATTGTTGTGCATGCAGCGGCAAGATGAATACGAAAAGGCAAAATCGTCCATGTTTCGTGCAGAAGAAGAGCAGCTAAGTTCAAGTGTTGGTTTGGCAAAAAATCTCAACAAACAACTGGAAAAAAGGCGGAGGTTGGAAGAAGAGGCTCTTCAAAAAGTAGAAGAAGCAAACGAACACTACAAAGTCTGTGTAACAAATGTTGAAGAAAGACGGAATGATCTAGAAAATACAAAGAGGGAAATTTTAACACAGCTTCGGACACTTGTTTTCCAGTGTGACCTTACACTTAAAGCT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACACAGCTTCGGACACTTGT
59.82
AGTCAGTGTTCTTTAACAGCAAGT
58.81
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACACAGCTTCGGACACTTGT
59.82
TCAGTGTTCTTTAACAGCAAGTTGT
59.59
146
PCR template sequence:
AAATGTTGAAGAAAGACGGAATGATCTAGAAAATACAAAGAGGGAAATTTTAACACAGCTTCGGACACTTGTTTTCCAGTGTGACCTTACACTTAAAGCTTCTTTTGAAAACATTTCTGTGGACTCAGTGGACTTACCCCATGAAAAAGGAAATTTTTCTCCTATAGAACTAGACAACTTGCTGTTAAAGAACACTGACT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-494-3p(1), mmu-miR-207(1), mmu-miR-5101(1), mmu-miR-7a-2-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TACACTTAAAGCTTCTTTTGAAAACA
siRNA sets
TTTCAAAAGAAGCTTTAAG, AAAAGAAGCTTTAAGTGTA, TTTTCAAAAGAAGCTTTAA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARHGAP29_771_ORF_1
1.0298
0.072963185
0.997974675
1284
ORF sequence:
ATGCCACTGCAGTCTCTATTTACCAACGCTCTTCTCAGTGACATCCACAGCAGCCACCTTCTACAACAGACAATTGCAGCCCTCCAAGCCAATAAATTTGTGCAGCCTCTACTTGGGAGGAAGAATGAGATGGAGAAGCAAAGGAAAGAAATAAAAGACCTTTGGAAGCAGCAACAGAATAAATTGCTCGAAACAGAGACAGCTCTCAAAAAAGCAAAATTGTTGTGCATGCAGCGGCAAGATGAATACGAAAAGGCAAAATCGTCCATGTTTCGTGCAGAAGAAGAGCAGCTAAGTTCAAGTGTTGGTTTGGCAAAAAATCTCAACAAACAACTGGAAAAAAGGCGGAGGTTGGAAGAAGAGGCTCTTCAAAAAGTAGAAGAAGCAAACGAACACTACAAAGTCTGTGTAACAAATGTTGAAGAAAGACGGAATGATCTAGAAAATACAAAGAGGGAAATTTTAACACAGCTTCGGACACTTGTTTTCCAGTGTGACCTTACACTTAAAGCTTCTTTTGAAAACATTTCTGTGGACTCAGTGGACTTACCCCATGAAAAAGGAAATTTTTCTCCTATAGAACTAGACAACTTGCTGTTAAAGAACACTGACTCTATAGAGCTGGCTTTGTCCTATGCTAAAACATGGTCAAAATATACCAAGAATATAGTGTCGTGGGTTGAAAAAAAGCTCAACTTGGAATTGGAGTCCACTAGAAATATTGTAAAATTGGCAGAGGCAACTAGATCTAGCATTGGTATACAAGAGTTTATGCCACTGCAGTCTCTATTTACCAACGCTCTTCTCAGTGACATCCACAGCAGCCACCTTCTACAACAGACAATTGCAGCCCTCCAAGCCAATAAATTTGTGCAGCCTCTACTTGGGAGGAAGAATGAGATGGAGAAGCAAAGGAAAGAAATAAAAGACCTTTGGAAGCAGCAACAGAATAAATTGCTCGAAACAGAGACAGCTCTCAAAAAAGCAAAATTGTTGTGCATGCAGCGGCAAGATGAATACGAAAAGGCAAAATCGTCCATGTTTCGTGCAGAAGAAGAGCAGCTAAGTTCAAGTGTTGGTTTGGCAAAAAATCTCAACAAACAACTGGAAAAAAGGCGGAGGTTGGAAGAAGAGGCTCTTCAAAAAGTAGAAGAAGCAAACGAACACTACAAAGTCTGTGTAACAAATGTTGAAGAAAGACGGAATGATCTAGAAAATACAAAGAGGGAAATTTTAACACAGCTTCGGACACTTGTTTTCCAGTGTGACCTTACACTTAAAGCT
Peptide sequence:
MPLQSLFTNALLSDIHSSHLLQQTIAALQANKFVQPLLGRKNEMEKQRKEIKDLWKQQQNKLLETETALKKAKLLCMQRQDEYEKAKSSMFRAEEEQLSSSVGLAKNLNKQLEKRRRLEEEALQKVEEANEHYKVCVTNVEERRNDLENTKREILTQLRTLVFQCDLTLKASFENISVDSVDLPHEKGNFSPIELDNLLLKNTDSIELALSYAKTWSKYTKNIVSWVEKKLNLELESTRNIVKLAEATRSSIGIQEFMPLQSLFTNALLSDIHSSHLLQQTIAALQANKFVQPLLGRKNEMEKQRKEIKDLWKQQQNKLLETETALKKAKLLCMQRQDEYEKAKSSMFRAEEEQLSSSVGLAKNLNKQLEKRRRLEEEALQKVEEANEHYKVCVTNVEERRNDLENTKREILTQLRTLVFQCDLTLKA
IRESfinder result
IRESfinder score
0.609324095
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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