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mmu_circDennd1a_1070
Basic information of circular RNA
PanCircBase ID:
mmu_circDennd1a_1070
mm39_Chr. Position ID:
chr2|37706927|37911478|-
Gene name:
Dennd1a
Transcript:
ENSMUST00000102787.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
12
Exon/intron indexes:
20,19,18,17,16,15,14,13,12,11,10,9
Exon/intron offsets:
0,27861,35480,37077,39200,41102,41452,119703,144725,166144,186458,204440
Genomic length:
204551
Exon/intron sizes in nt:
8,91,32,57,72,41,88,10,00,00,00,00,00,00,000
Flanking exon/introns:
chr2:37692285-37706927|chr2:37911478-37929163
Splice length:
1070
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
AGAAATCTGACAGAATATTTTGTGGCTGTGGATGTGAACAACATGTTGCATCTGTACGCCAGCATGCTGTATGAACGCCGGATCCTCATCATCTGCAGCAAGCTCAGTACATTGACGGCCTGCATCCACGGCTCAGCTGCCATGCTCTACCCTATGTACTGGCAGCATGTGTACATCCCTGTGCTGCCCCCACATCTGCTGGACTACTGCTGTGCTCCCATGCCCTACCTCATAGGAATCCATTTAAGTTTAATGGAGAAGGTCAGGAACATGGCCCTCGATGATGTTGTGATCTTGAACGTGGACACCAACACCCTGGAAACCCCTTTTGATGACCTCCAGAGCCTCCCAAATGATGTGATCTCCTCCCTGAAGAACAGGCTGAAGAAGGTCTCTACAACCACAGGTGATGGGGTGGCCAGAGCCTTCCTCAAGGCCCAGGCTGCTTTCTTTGGCAGCTACCGGAATGCACTGAAAATTGAGCCAGAAGAACCCATCACTTTCAGTGAGGAAGCCTTTGTATCCCACTACCGCTCTGGAGCCATGAAACAGTTCCTACAGAATGCCACACAGTTGCAGCTCTTCAAGCAGTTTATCGATGGCCGACTAGACCTTCTCAATTCCGGTGAAGGTTTCAGCGATGTCTTTGAGGAGGAAATCAACATGGGAGAGTATGCCGGCAGTGATAAACTGTACCATCAGTGGCTGTCCACAGTCAGGAAAGGAAGTGGTGCGATTCTGAATACTGTAAAAACAAAAGCTAACCCAGCCATGAAGACTGTCTACAAGTTTGCAAAAGATCATGCAAAAATGGGAATAAAGGAGGTGAAAAACCGCTTGAAGCAAAAGGACATCACGGAGAACGGCTGTGTGTCCTCTGCAGAAGATCCACTGCCAAAGACCATGCCATCCCCACAGGCAGAGACCCAGGACCCCAGACTTCGAGAAGACCGGAGACCAATCACAGTCCACTTTGGGCAGGTACGGCCTCCTCGTCCACATGTCGTCAGGAGACCCAAGAGCAACATCACTGTGGAAGGCAGGAGGACATCTGTCTCAAGCCCTGAGCA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CACATGTCGTCAGGAGACCC
60.11
GATGAGGATCCGGCGTTCAT
59.97
163
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CACATGTCGTCAGGAGACCC
60.11
ATGATGAGGATCCGGCGTTC
59.97
165
PCR template sequence:
ACTTTGGGCAGGTACGGCCTCCTCGTCCACATGTCGTCAGGAGACCCAAGAGCAACATCACTGTGGAAGGCAGGAGGACATCTGTCTCAAGCCCTGAGCAAGAAATCTGACAGAATATTTTGTGGCTGTGGATGTGAACAACATGTTGCATCTGTACGCCAGCATGCTGTATGAACGCCGGATCCTCATCATCTGCAGCA
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-let-7a-5p(1), mmu-let-7e-5p(1), mmu-miR-152-3p(1), mmu-miR-148b-3p(1), mmu-miR-148a-3p(1), mmu-miR-298-5p(1), mmu-miR-381-3p(1), mmu-let-7d-5p(1), mmu-miR-149-5p(1), mmu-miR-136-5p(1), mmu-miR-22-3p(1), mmu-miR-199b-3p(1), mmu-miR-199a-3p(1), mmu-miR-3061-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CAAGCCCTGAGCAAGAAATCTGACAG
siRNA sets
AGATTTCTTGCTCAGGGCT, TCAGATTTCTTGCTCAGGG, TGTCAGATTTCTTGCTCAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDENND1A_1070_ORF_1
1.2293
0.362157328
0.997437479
1038
ORF sequence:
ATGTTGCATCTGTACGCCAGCATGCTGTATGAACGCCGGATCCTCATCATCTGCAGCAAGCTCAGTACATTGACGGCCTGCATCCACGGCTCAGCTGCCATGCTCTACCCTATGTACTGGCAGCATGTGTACATCCCTGTGCTGCCCCCACATCTGCTGGACTACTGCTGTGCTCCCATGCCCTACCTCATAGGAATCCATTTAAGTTTAATGGAGAAGGTCAGGAACATGGCCCTCGATGATGTTGTGATCTTGAACGTGGACACCAACACCCTGGAAACCCCTTTTGATGACCTCCAGAGCCTCCCAAATGATGTGATCTCCTCCCTGAAGAACAGGCTGAAGAAGGTCTCTACAACCACAGGTGATGGGGTGGCCAGAGCCTTCCTCAAGGCCCAGGCTGCTTTCTTTGGCAGCTACCGGAATGCACTGAAAATTGAGCCAGAAGAACCCATCACTTTCAGTGAGGAAGCCTTTGTATCCCACTACCGCTCTGGAGCCATGAAACAGTTCCTACAGAATGCCACACAGTTGCAGCTCTTCAAGCAGTTTATCGATGGCCGACTAGACCTTCTCAATTCCGGTGAAGGTTTCAGCGATGTCTTTGAGGAGGAAATCAACATGGGAGAGTATGCCGGCAGTGATAAACTGTACCATCAGTGGCTGTCCACAGTCAGGAAAGGAAGTGGTGCGATTCTGAATACTGTAAAAACAAAAGCTAACCCAGCCATGAAGACTGTCTACAAGTTTGCAAAAGATCATGCAAAAATGGGAATAAAGGAGGTGAAAAACCGCTTGAAGCAAAAGGACATCACGGAGAACGGCTGTGTGTCCTCTGCAGAAGATCCACTGCCAAAGACCATGCCATCCCCACAGGCAGAGACCCAGGACCCCAGACTTCGAGAAGACCGGAGACCAATCACAGTCCACTTTGGGCAGGTACGGCCTCCTCGTCCACATGTCGTCAGGAGACCCAAGAGCAACATCACTGTGGAAGGCAGGAGGACATCTGTCTCAAGCCCTGAGCAAGAAATCTGA
Peptide sequence:
MLHLYASMLYERRILIICSKLSTLTACIHGSAAMLYPMYWQHVYIPVLPPHLLDYCCAPMPYLIGIHLSLMEKVRNMALDDVVILNVDTNTLETPFDDLQSLPNDVISSLKNRLKKVSTTTGDGVARAFLKAQAAFFGSYRNALKIEPEEPITFSEEAFVSHYRSGAMKQFLQNATQLQLFKQFIDGRLDLLNSGEGFSDVFEEEINMGEYAGSDKLYHQWLSTVRKGSGAILNTVKTKANPAMKTVYKFAKDHAKMGIKEVKNRLKQKDITENGCVSSAEDPLPKTMPSPQAETQDPRLREDRRPITVHFGQVRPPRPHVVRRPKSNITVEGRRTSVSSPEQEI
IRESfinder result
IRESfinder score
0.317017053
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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