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mmu_circCc2d2a_1253
Basic information of circular RNA
PanCircBase ID:
mmu_circCc2d2a_1253
mm39_Chr. Position ID:
chr5|43861202|43873187|+
Gene name:
Cc2d2a
Transcript:
ENSMUST00000048150.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
17,18,19,20,21,22,23,24
Exon/intron offsets:
0,2196,2882,5183,6644,8379,10648,11893
Genomic length:
11985
Exon/intron sizes in nt:
242,178,157,148,139,204,93,92
Flanking exon/introns:
chr5:43860689-43861202|chr5:43873187-43874278
Splice length:
1253
Other database IDs:
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_123812
Human Ortholog IDs:
Mature spliced Sequence:
AGGGCCAAAAAGAAGAAAAAGAAGCAAACAACAGAGGAACACCTCGAGGAGGAAGAGGCTGAGGAGTCCTTCCCTGAGGAAGAGGTTACTAAGCCCATTCCCCCAGAGCCCACTGACCCAGCTGTCATAGAGCAGCAGGTGCGGGAGAGAGCAGCCCACAGCAGGAGGAGGCCAGGGGAGCCCACACTCATTCCAGAGTTGAGTCTGGCAGGGAATGTGACCCCCAATGACCAGTGTCCTAGGGTGGAGGTCTCCAGAAGGGAAGATGTCAGGAGGCGCTCTGTATACTTAAAGGTGGTCTTCAACAGCAAAGAGGTGTCGAGGACTGTTAGCCGGCCTCTAGGGGCAGATTTCCGGGTTCACTTTGGACAGATTTTCAACCTGCAGATATTCAACTGGCCAGAGAGCTTAATGCTTCAGGTCTATGAAACTATTGGTCATAGTGGTACCACCTTGCTAGCTGAGGTCTTCCTGCCTATCCCTGAGACGACCCTTGTCACGGGAAGGGCCCCCATTGAAGAGGTGGAGTTCAGCAGTAACCAGCATGTGACATTAGACCATGAGGGAGTTGGAAGTGGGGTGCCCTTCTCCTTCGAAGCTGATGGCAGCAATCAACTGACTCTAATGACATCAGGGAAAGTGTCCCACAGTGTGGCATGGGCCGTTGGGGAAAATGGGATTCCTTTAATTCCTCCACTGTCACAGCAGAACATTGGATTTCGAAGTGCTTTGAGGAGGGCAGATGCCATCTCATCCATTGGCACATCAGGGCTGACGGACATGAAGAAGTTGGCCAAGTGGGCAGCAGAGTCCAAGCTTGACCCCAATGATCCCAACCACGCCCCATTGATGCAGCTGATCTCGGTTGCTACCAGTGGTGAATCCTATGTCCCTGACTTCTTCCGGCTGGAGCAGCTGCAGCAGGAATTCAACTTCGTCTCAGAGGAGGAATTAAATAGATCCAAACGGTTCCGACTTCTCCATCTTAGGAGCCAAGAGGTGCCAGAATTCCGGAACTATAAACAAATTCCAGCATATGACCGAGAAATTATGGAAAAGGTATTCCAGGACTATGAGAAACGATTACGAGACAGAAATGTAATTGAAACCAAGGACCACCTGGACATGCACAGAGCCACAGTAGCCAAGTACCTTCAGCAAGTTAGAGAAGCAGTGGTAAATCGCTTCCTAACTGCCAAACACCATTTTCTTCTTACTGATTTGGTAGTAGAAGAAGAAGTCCCCAATATCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGCTTCCTAACTGCCAAACAC
60.07
CCTCAGGGAAGGACTCCTCA
59.96
150
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCGCTTCCTAACTGCCAAACA
60.2
CCTCAGGGAAGGACTCCTCA
59.96
151
PCR template sequence:
TTCAGCAAGTTAGAGAAGCAGTGGTAAATCGCTTCCTAACTGCCAAACACCATTTTCTTCTTACTGATTTGGTAGTAGAAGAAGAAGTCCCCAATATCAGAGGGCCAAAAAGAAGAAAAAGAAGCAAACAACAGAGGAACACCTCGAGGAGGAAGAGGCTGAGGAGTCCTTCCCTGAGGAAGAGGTTACTAAGCCCATTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-23b-3p(1), mmu-miR-23a-3p(1), mmu-miR-212-3p(1), mmu-miR-370-3p(1), mmu-miR-27a-5p(1), mmu-miR-680(1), mmu-miR-5101(1), mmu-miR-670-5p(1), mmu-miR-1904(1), mmu-miR-339-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TCCCCAATATCAGAGGGCCAAAAAGA
siRNA sets
TTTTTGGCCCTCTGATATT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCC2D2A_1253_ORF_1
0.9545
0.217067404
0.98756973
972
ORF sequence:
ATGCTTCAGGTCTATGAAACTATTGGTCATAGTGGTACCACCTTGCTAGCTGAGGTCTTCCTGCCTATCCCTGAGACGACCCTTGTCACGGGAAGGGCCCCCATTGAAGAGGTGGAGTTCAGCAGTAACCAGCATGTGACATTAGACCATGAGGGAGTTGGAAGTGGGGTGCCCTTCTCCTTCGAAGCTGATGGCAGCAATCAACTGACTCTAATGACATCAGGGAAAGTGTCCCACAGTGTGGCATGGGCCGTTGGGGAAAATGGGATTCCTTTAATTCCTCCACTGTCACAGCAGAACATTGGATTTCGAAGTGCTTTGAGGAGGGCAGATGCCATCTCATCCATTGGCACATCAGGGCTGACGGACATGAAGAAGTTGGCCAAGTGGGCAGCAGAGTCCAAGCTTGACCCCAATGATCCCAACCACGCCCCATTGATGCAGCTGATCTCGGTTGCTACCAGTGGTGAATCCTATGTCCCTGACTTCTTCCGGCTGGAGCAGCTGCAGCAGGAATTCAACTTCGTCTCAGAGGAGGAATTAAATAGATCCAAACGGTTCCGACTTCTCCATCTTAGGAGCCAAGAGGTGCCAGAATTCCGGAACTATAAACAAATTCCAGCATATGACCGAGAAATTATGGAAAAGGTATTCCAGGACTATGAGAAACGATTACGAGACAGAAATGTAATTGAAACCAAGGACCACCTGGACATGCACAGAGCCACAGTAGCCAAGTACCTTCAGCAAGTTAGAGAAGCAGTGGTAAATCGCTTCCTAACTGCCAAACACCATTTTCTTCTTACTGATTTGGTAGTAGAAGAAGAAGTCCCCAATATCAGAGGGCCAAAAAGAAGAAAAAGAAGCAAACAACAGAGGAACACCTCGAGGAGGAAGAGGCTGAGGAGTCCTTCCCTGAGGAAGAGGTTACTAAGCCCATTCCCCCAGAGCCCACTGACCCAGCTGTCATAG
Peptide sequence:
MLQVYETIGHSGTTLLAEVFLPIPETTLVTGRAPIEEVEFSSNQHVTLDHEGVGSGVPFSFEADGSNQLTLMTSGKVSHSVAWAVGENGIPLIPPLSQQNIGFRSALRRADAISSIGTSGLTDMKKLAKWAAESKLDPNDPNHAPLMQLISVATSGESYVPDFFRLEQLQQEFNFVSEEELNRSKRFRLLHLRSQEVPEFRNYKQIPAYDREIMEKVFQDYEKRLRDRNVIETKDHLDMHRATVAKYLQQVREAVVNRFLTAKHHFLLTDLVVEEEVPNIRGPKRRKRSKQQRNTSRRKRLRSPSLRKRLLSPFPQSPLTQLS
IRESfinder result
IRESfinder score
0.50056037
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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