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mmu_circCc2d2a_1064
Basic information of circular RNA
PanCircBase ID:
mmu_circCc2d2a_1064
mm39_Chr. Position ID:
chr5|43841381|43857421|+
Gene name:
Cc2d2a
Transcript:
ENSMUST00000048150.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
9,10,11,12,13,14,15
Exon/intron offsets:
0,1218,4084,4878,11045,12486,15899
Genomic length:
16040
Exon/intron sizes in nt:
17,41,63,13,71,32,21,00,00,000
Flanking exon/introns:
chr5:43840543-43841381|chr5:43857421-43860532
Splice length:
1064
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
CTCCCTCCTGGTTTCCCATCTGCAGAAGAGGCCTATAATTTCTTTACGTTCAACTTTGATCCTGAGCCAGAGGAATCAGAGGAAAAATCACCAGTAAAAGGTGGAGAGAGAGCTCATCATGAGGACCAAGAAGGAGAAGAAGGAACACAAGCTCAAGAGAGAGCGAAGAAAACGGAAGAGGAAGAGCTGCTTAATGGGAAGGATGCTGAAGACTTCCTGTTGGGCTTAGATCCCACGGCCCATGACTTCGTGGCAGTCAGAGCTGCAGAGTACAAGAGTGCCCGCATTCAGCTGCAGAAGGAGAAAGAAATCCTCTTCACGCCTAGTCGGCTGACAGTGCCGACCTATAAAAAGCTTCCTGAGAACATACAGCCAAGATTCCTGGAAGATGAAGGTCTTTACATCGGGGCCAGACCAGAGGTGGCACGCACCAATGAGAACATCATGGAGAACCGACTGCTGATACAGGAGCCTGGGAGTAAGTGGTTCGGAGATGATGGCAGAATCCTGGCACTGCCCAGCCCCATCAAGCCGTTTCCCTCAAGGCCATCACTAACCACACGGGAGCAAAGCCCCAAGGCTGGACTGGAGACTTTGTACAAGAAGGCAGAGAAGTATGTCCACAGTAGACAGCATATGATTGGATCTGGAGACCCTCCAGGAAATTTCCAACTGGACATCGATATTTCTGGCTTAATCTTCACTCATCACCCCTGTTTTAGCCGAGAGCATGTCTTGGCATCAAAGCTGGCCCAGTTGTATGACCAGTACCTTGCAAGACAGCAAAGAAATAAGACGAAATTCCTTACAGATAAGCTTCAAGCACTAAGAAAAGCTGTTCAGACCAGTCTTAACCCAGAGAAACCTCATCAGTCTCTTGACACAACCCAGAAAACCATCAATGAGTATAAATCTGAAATTCGGCAGACTCGAAAACTGCGAGATGCTGAACAAGAGAAAGATCGAACACTGCTGAAGACCATCATAAAGGTCTGGAAAGAGATGAAGTCATTACGGGAGTTCCAGAGGTTTACAAACACGCCGTTGAAGCTCGTCTTGAGAAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTCATTACGGGAGTTCCAGAGG
60.16
TCCTCTGATTCCTCTGGCTCA
59.99
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGTCATTACGGGAGTTCCAGAG
59.24
TCCTCTGATTCCTCTGGCTCA
59.99
141
PCR template sequence:
GAACACTGCTGAAGACCATCATAAAGGTCTGGAAAGAGATGAAGTCATTACGGGAGTTCCAGAGGTTTACAAACACGCCGTTGAAGCTCGTCTTGAGAAACTCCCTCCTGGTTTCCCATCTGCAGAAGAGGCCTATAATTTCTTTACGTTCAACTTTGATCCTGAGCCAGAGGAATCAGAGGAAAAATCACCAGTAAAAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-433-3p(2), mmu-miR-205-5p(1), mmu-miR-24-3p(1), mmu-miR-149-5p(1), mmu-miR-431-5p(1), mmu-miR-666-5p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
TCGTCTTGAGAAACTCCCTCCTGGTT
siRNA sets
AACCAGGAGGGAGTTTCTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCC2D2A_1064_ORF_1
1.0345
0.197958645
0.931784663
717
ORF sequence:
ATGGAGAACCGACTGCTGATACAGGAGCCTGGGAGTAAGTGGTTCGGAGATGATGGCAGAATCCTGGCACTGCCCAGCCCCATCAAGCCGTTTCCCTCAAGGCCATCACTAACCACACGGGAGCAAAGCCCCAAGGCTGGACTGGAGACTTTGTACAAGAAGGCAGAGAAGTATGTCCACAGTAGACAGCATATGATTGGATCTGGAGACCCTCCAGGAAATTTCCAACTGGACATCGATATTTCTGGCTTAATCTTCACTCATCACCCCTGTTTTAGCCGAGAGCATGTCTTGGCATCAAAGCTGGCCCAGTTGTATGACCAGTACCTTGCAAGACAGCAAAGAAATAAGACGAAATTCCTTACAGATAAGCTTCAAGCACTAAGAAAAGCTGTTCAGACCAGTCTTAACCCAGAGAAACCTCATCAGTCTCTTGACACAACCCAGAAAACCATCAATGAGTATAAATCTGAAATTCGGCAGACTCGAAAACTGCGAGATGCTGAACAAGAGAAAGATCGAACACTGCTGAAGACCATCATAAAGGTCTGGAAAGAGATGAAGTCATTACGGGAGTTCCAGAGGTTTACAAACACGCCGTTGAAGCTCGTCTTGAGAAACTCCCTCCTGGTTTCCCATCTGCAGAAGAGGCCTATAATTTCTTTACGTTCAACTTTGATCCTGAGCCAGAGGAATCAGAGGAAAAATCACCAGTAA
Peptide sequence:
MENRLLIQEPGSKWFGDDGRILALPSPIKPFPSRPSLTTREQSPKAGLETLYKKAEKYVHSRQHMIGSGDPPGNFQLDIDISGLIFTHHPCFSREHVLASKLAQLYDQYLARQQRNKTKFLTDKLQALRKAVQTSLNPEKPHQSLDTTQKTINEYKSEIRQTRKLRDAEQEKDRTLLKTIIKVWKEMKSLREFQRFTNTPLKLVLRNSLLVSHLQKRPIISLRSTLILSQRNQRKNHQ
IRESfinder result
IRESfinder score
0.489525028
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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