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mmu_circCkap5_922
Basic information of circular RNA
PanCircBase ID:
mmu_circCkap5_922
mm39_Chr. Position ID:
chr2|91380896|91393188|+
Gene name:
Ckap5
Transcript:
ENSMUST00000111338.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
4,5,6,7,8,9,10
Exon/intron offsets:
0,4715,5948,7023,8497,10255,12202
Genomic length:
12292
Exon/intron sizes in nt:
207,172,133,101,114,105,90
Flanking exon/introns:
chr2:91379312-91380896|chr2:91393188-91393293
Splice length:
922
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
AACAACGGGAGAGGTTGTATCAGGTGTTGTAAGTAAAGTCTTCAACCAACCTAAAGCCAAAGCCAAGGAACTGGGCATAGAGATTTGCCTCATGTATGTTGAGATTGAAAAAGGAGAGTCTGTACAAGAAGAGCTTCTGAAGGGCCTGGATAACAAGAACCCCAAGATCATAGTGGCCTGTATAGAAACACTGAGGAAAGCCTTAAGTGAATTTGGTTCCAAAATCATCTCACTTAAGCCAATTATTAAAGTGTTGCCAAAACTATTTGAATCTCGAGACAAGGCTGTTCGGGATGAAGCCAAATTATTTGCTATAGAGATTTATCGATGGAATCGAGATGCTGTGAAACACACACTACAAAATATAAATTCTGTCCAGTTGAAAGAATTAGAAGAAGAGTGGGTCAAGCTGCCAACAGGTGCTCCTAAGCCCAGTCGGTTTCTGCGTTCCCAACAAGAACTAGAAGCTAAACTGGAACAGCAACAGTCTGCTGGTGGAGATGCAGAAGGGGGTGGTGATGATGGTGATGAGGTACCACAGGTAGATGCTTATGAGCTTCTGGATGCGGTAGAGATCCTTTCCAAACTTCCCAAAGACTTTTATGACAAAATTGAGGCAAAGAAATGGCAAGAGAGAAAAGAAGCTCTGGAGGCTGTAGAAGTACTAGTGAAAAACCCCAAGCTGGAAGCAGGCGATTACGCAGATTTAGTGAAAGCATTAAAAAAGGTTGTTGGAAAGGACACCAATGTCATGTTGGTAGCTTTGGCAGCAAAATGTCTTACTGGCTTAGCTGTTGGGCTCAGAAAGAAATTTGGACAATATGCAGGACATGTTGTGCCAACAATTTTGGAAAAATTCAAAGAAAAGAAGCCTCAAGTGGTACAAGCCCTGCAGGAGGCAATTGATGCAATCTTCCTCACT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCAGGACATGTTGTGCCAAC
60.32
ATGCCCAGTTCCTTGGCTTT
60.18
177
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCAGGACATGTTGTGCCAAC
60.32
TCTATGCCCAGTTCCTTGGC
59.74
180
PCR template sequence:
TGCAGGACATGTTGTGCCAACAATTTTGGAAAAATTCAAAGAAAAGAAGCCTCAAGTGGTACAAGCCCTGCAGGAGGCAATTGATGCAATCTTCCTCACTAACAACGGGAGAGGTTGTATCAGGTGTTGTAAGTAAAGTCTTCAACCAACCTAAAGCCAAAGCCAAGGAACTGGGCATAGAGATTTGCCTCATGTATGTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-216a-5p(1), mmu-miR-96-5p(1), mmu-miR-27a-5p(1), mmu-miR-673-5p(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AATCTTCCTCACTAACAACGGGAGAG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCKAP5_922_ORF_1
1.0736
0.16484858
0.991562616
1023
ORF sequence:
ATGCAGGACATGTTGTGCCAACAATTTTGGAAAAATTCAAAGAAAAGAAGCCTCAAGTGGTACAAGCCCTGCAGGAGGCAATTGATGCAATCTTCCTCACTAACAACGGGAGAGGTTGTATCAGGTGTTGTAAGTAAAGTCTTCAACCAACCTAAAGCCAAAGCCAAGGAACTGGGCATAGAGATTTGCCTCATGTATGTTGAGATTGAAAAAGGAGAGTCTGTACAAGAAGAGCTTCTGAAGGGCCTGGATAACAAGAACCCCAAGATCATAGTGGCCTGTATAGAAACACTGAGGAAAGCCTTAAGTGAATTTGGTTCCAAAATCATCTCACTTAAGCCAATTATTAAAGTGTTGCCAAAACTATTTGAATCTCGAGACAAGGCTGTTCGGGATGAAGCCAAATTATTTGCTATAGAGATTTATCGATGGAATCGAGATGCTGTGAAACACACACTACAAAATATAAATTCTGTCCAGTTGAAAGAATTAGAAGAAGAGTGGGTCAAGCTGCCAACAGGTGCTCCTAAGCCCAGTCGGTTTCTGCGTTCCCAACAAGAACTAGAAGCTAAACTGGAACAGCAACAGTCTGCTGGTGGAGATGCAGAAGGGGGTGGTGATGATGGTGATGAGGTACCACAGGTAGATGCTTATGAGCTTCTGGATGCGGTAGAGATCCTTTCCAAACTTCCCAAAGACTTTTATGACAAAATTGAGGCAAAGAAATGGCAAGAGAGAAAAGAAGCTCTGGAGGCTGTAGAAGTACTAGTGAAAAACCCCAAGCTGGAAGCAGGCGATTACGCAGATTTAGTGAAAGCATTAAAAAAGGTTGTTGGAAAGGACACCAATGTCATGTTGGTAGCTTTGGCAGCAAAATGTCTTACTGGCTTAGCTGTTGGGCTCAGAAAGAAATTTGGACAATATGCAGGACATGTTGTGCCAACAATTTTGGAAAAATTCAAAGAAAAGAAGCCTCAAGTGGTACAAGCCCTGCAGGAGGCAATTGATGCAATCTTCCTCACT
Peptide sequence:
MQDMLCQQFWKNSKKRSLKWYKPCRRQLMQSSSLTTGEVVSGVVSKVFNQPKAKAKELGIEICLMYVEIEKGESVQEELLKGLDNKNPKIIVACIETLRKALSEFGSKIISLKPIIKVLPKLFESRDKAVRDEAKLFAIEIYRWNRDAVKHTLQNINSVQLKELEEEWVKLPTGAPKPSRFLRSQQELEAKLEQQQSAGGDAEGGGDDGDEVPQVDAYELLDAVEILSKLPKDFYDKIEAKKWQERKEALEAVEVLVKNPKLEAGDYADLVKALKKVVGKDTNVMLVALAAKCLTGLAVGLRKKFGQYAGHVVPTILEKFKEKKPQVVQALQEAIDAIFLT
IRESfinder result
IRESfinder score
0.407086794
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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