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mmu_circReps2_1003
Basic information of circular RNA
PanCircBase ID:
mmu_circReps2_1003
mm39_Chr. Position ID:
chrX|161297274|161348347|-
Gene name:
Reps2
Transcript:
ENSMUST00000154424.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
10,9,8,7,6,5,4,3,2
Exon/intron offsets:
0,4050,5842,8643,11979,32476,38264,40518,50949
Genomic length:
51073
Exon/intron sizes in nt:
70,95,14,36,41,39,95,10,00,00,000
Flanking exon/introns:
chrX:161295728-161297274|chrX:161348347-161348477
Splice length:
1003
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
ATCACAGAACTGTGTGGTGCAAAGCGGGTTGGTTATTTTGGCCCAACACAGTTTTATGTTGCCCTGAAATTGATTGCTGCAGCACAGGCTGGCCTCCCTGTGAGAACAGAGAGTATTAAATGTGAACTGCCTCTGCCTCGCTTTGTGATGTCGAAGAATGATGGTGAGATACGGTTTGGGAACCCAGCTGAGCTGCATGGACCGAAGGTTCAGATTCCATACTTAACCACAGAGAAAAATTCCTTCAAAAGAATGGACAATGAGGATAAGCAGGAAACACAGTCTCCCACGATGTCACCCCTCGCCTCCCCTCCTTCTTCCCCGCCTCATTACCAGAGGGTGTCCTTGAGCCATGGCTACAGCAAACTGCGGAGCGGCACAGAACAGATGCATCCAGCTCCATATGAAAGGCAGCCCATTGGCCAGCCTGAAGGACCCTCATCAGAGGGTCCAGGAGCCAAACCCTTTCGTCGGCAGGCATCTCTTATTCGGTCCTTTTCAGTGGAGAGAGAACCGCAGGAGAACAACAGTAATTACCCAGATGAGCCCTGGAGGATAACTGAAGAACAGCGGGAGTACTACGTCAATCAGTTTCGGTCCCTCCAGCCAGACCCGAGTTCCTTCATTTCAGGGTCTGTGGCCAAGAACTTCTTCACCAAATCAAAGCTCTCCATTCCAGAACTCTCTTATATCTGGGAACTCAGTGATGCTGACTGTGATGGAGCCCTGACCTTGTCCGAGTTTTGTGCTGCATTCCATCTCATCGTAGCCCGGAAGAACGGCTACCCACTGCCAGAGGGCCTGCCTCCAACTCTGCAGCCAGAGTACTTGCAAGCAGCTTTCCCTAAATCCAAGTGGGAGTGTGCAATTTTTGATTCTTATTCTGAGTCAATGCCAGCAAACCAACAGTCCTGTGACTTGAATCGGATGGAGACATCTGTTAAAGACGTGGCTGACTTCCCTGTCCCTACCCAAGATGTGACTACTGCTGATGACAAACAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAAGACGTGGCTGACTTCCC
60.25
GCAGCAATCAATTTCAGGGCA
60.07
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAAGACGTGGCTGACTTCCC
60.25
TGCAGCAATCAATTTCAGGGC
60.07
142
PCR template sequence:
CAACAGTCCTGTGACTTGAATCGGATGGAGACATCTGTTAAAGACGTGGCTGACTTCCCTGTCCCTACCCAAGATGTGACTACTGCTGATGACAAACAAGATCACAGAACTGTGTGGTGCAAAGCGGGTTGGTTATTTTGGCCCAACACAGTTTTATGTTGCCCTGAAATTGATTGCTGCAGCACAGGCTGGCCTCCCTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
15
Interacting miRNAs (#binding sites)
mmu-miR-32-5p(1), mmu-miR-34c-5p(1), mmu-miR-34a-5p(1), mmu-miR-92a-3p(1), mmu-miR-709(1), mmu-miR-320-3p(1), mmu-miR-363-3p(1), mmu-miR-199b-3p(1), mmu-miR-199a-3p(1), mmu-miR-34b-5p(1), mmu-miR-705(1), mmu-miR-207(1), mmu-miR-350-3p(1), mmu-miR-296-3p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GATGACAAACAAGATCACAGAACTGT
siRNA sets
TTCTGTGATCTTGTTTGTC,TCTGTGATCTTGTTTGTCA,GTTCTGTGATCTTGTTTGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCREPS2_1003_ORF_1
0.9025
0.229756111
0.990482429
1014
ORF sequence:
ATGACAAACAAGATCACAGAACTGTGTGGTGCAAAGCGGGTTGGTTATTTTGGCCCAACACAGTTTTATGTTGCCCTGAAATTGATTGCTGCAGCACAGGCTGGCCTCCCTGTGAGAACAGAGAGTATTAAATGTGAACTGCCTCTGCCTCGCTTTGTGATGTCGAAGAATGATGGTGAGATACGGTTTGGGAACCCAGCTGAGCTGCATGGACCGAAGGTTCAGATTCCATACTTAACCACAGAGAAAAATTCCTTCAAAAGAATGGACAATGAGGATAAGCAGGAAACACAGTCTCCCACGATGTCACCCCTCGCCTCCCCTCCTTCTTCCCCGCCTCATTACCAGAGGGTGTCCTTGAGCCATGGCTACAGCAAACTGCGGAGCGGCACAGAACAGATGCATCCAGCTCCATATGAAAGGCAGCCCATTGGCCAGCCTGAAGGACCCTCATCAGAGGGTCCAGGAGCCAAACCCTTTCGTCGGCAGGCATCTCTTATTCGGTCCTTTTCAGTGGAGAGAGAACCGCAGGAGAACAACAGTAATTACCCAGATGAGCCCTGGAGGATAACTGAAGAACAGCGGGAGTACTACGTCAATCAGTTTCGGTCCCTCCAGCCAGACCCGAGTTCCTTCATTTCAGGGTCTGTGGCCAAGAACTTCTTCACCAAATCAAAGCTCTCCATTCCAGAACTCTCTTATATCTGGGAACTCAGTGATGCTGACTGTGATGGAGCCCTGACCTTGTCCGAGTTTTGTGCTGCATTCCATCTCATCGTAGCCCGGAAGAACGGCTACCCACTGCCAGAGGGCCTGCCTCCAACTCTGCAGCCAGAGTACTTGCAAGCAGCTTTCCCTAAATCCAAGTGGGAGTGTGCAATTTTTGATTCTTATTCTGAGTCAATGCCAGCAAACCAACAGTCCTGTGACTTGAATCGGATGGAGACATCTGTTAAAGACGTGGCTGACTTCCCTGTCCCTACCCAAGATGTGACTACTGCTGATGACAAACAA
Peptide sequence:
MTNKITELCGAKRVGYFGPTQFYVALKLIAAAQAGLPVRTESIKCELPLPRFVMSKNDGEIRFGNPAELHGPKVQIPYLTTEKNSFKRMDNEDKQETQSPTMSPLASPPSSPPHYQRVSLSHGYSKLRSGTEQMHPAPYERQPIGQPEGPSSEGPGAKPFRRQASLIRSFSVEREPQENNSNYPDEPWRITEEQREYYVNQFRSLQPDPSSFISGSVAKNFFTKSKLSIPELSYIWELSDADCDGALTLSEFCAAFHLIVARKNGYPLPEGLPPTLQPEYLQAAFPKSKWECAIFDSYSESMPANQQSCDLNRMETSVKDVADFPVPTQDVTTADDKQ
IRESfinder result
IRESfinder score
0.566528337
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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