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mmu_circCdc5l_858
Basic information of circular RNA
PanCircBase ID:
mmu_circCdc5l_858
mm39_Chr. Position ID:
chr17|45727870|45738968|-
Gene name:
Cdc5l
Transcript:
ENSMUST00000024727.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
7,6,5,4,3,2
Exon/intron offsets:
0,2656,7556,8907,9575,10994
Genomic length:
11098
Exon/intron sizes in nt:
1,45,21,91,00,12,81,62,000
Flanking exon/introns:
chr17:45726667-45727870|chr17:45738968-45744316
Splice length:
858
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GATGAAATTCTGAAAGCAGCGGTAATGAAATATGGGAAAAACCAGTGGTCTAGGATTGCCTCATTGCTGCATAGGAAATCGGCAAAGCAGTGCAAAGCCAGATGGTACGAATGGCTGGATCCAAGTATTAAAAAAACTGAATGGTCCAGAGAAGAGGAAGAAAAACTCTTGCACCTGGCCAAGCTGATGCCAACGCAGTGGAGGACCATTGCTCCGATCATAGGAAGAACAGCAGCCCAGTGCTTGGAACACTATGAGTTCCTCCTGGACAAAACTGCCCAAAGGGACAATGAAGAAGAAACAACAGATGACCCCCGAAAGCTTAAGCCTGGAGAGATAGATCCAAACCCAGAGACCAAGCCAGCCCGGCCTGACCCGATAGACATGGATGAGGATGAACTTGAGATGCTCTCCGAGGCTCGAGCCCGTCTGGCCAATACTCAAGGAAAGAAGGCTAAAAGGAAAGCAAGAGAAAAGCAGTTGGAAGAAGCCAGGCGCCTTGCTGCCCTCCAGAAAAGACGAGAGCTTCGAGCAGCTGGCATAGAGATTCAGAAGAAAAGGAAAAAGAAGAGAGGCGTTGATTATAATGCTGAAATCCCATTTGAAAAAAAGCCTGCTCTTGGTTTTTATGATACTTCTGAGGAGAATTACCAGGCCCTTGATGCAGATTTCAGGAAACTGCGGCAGCAGGATCTTGATGGAGAGCTAAGATCTGAAAAAGAAGGAAGAGATAGGAAAAAAGACAAACAGCATTTAAAAAGGAAAAAGGAGTCTGATTTACCATCAGCTATCCTCCAAACCAGTGGTGTCTCTGAGTTCACTAAAAAGAGAAGCAAACTTGTGTTGCCTGCGCCTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCCTCCAAACCAGTGGTGTC
59.53
CTTTGCACTGCTTTGCCGAT
60.04
165
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCCTCCAAACCAGTGGTGTC
59.53
TGCACTGCTTTGCCGATTTC
60.04
162
PCR template sequence:
AAGGAAAAAGGAGTCTGATTTACCATCAGCTATCCTCCAAACCAGTGGTGTCTCTGAGTTCACTAAAAAGAGAAGCAAACTTGTGTTGCCTGCGCCTCAGGATGAAATTCTGAAAGCAGCGGTAATGAAATATGGGAAAAACCAGTGGTCTAGGATTGCCTCATTGCTGCATAGGAAATCGGCAAAGCAGTGCAAAGCCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-138-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-370-3p(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GCCTGCGCCTCAGGATGAAATTCTGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCDC5L_858_ORF_1
1.0841
0.234174212
0.999949842
1692
ORF sequence:
ATGAAATATGGGAAAAACCAGTGGTCTAGGATTGCCTCATTGCTGCATAGGAAATCGGCAAAGCAGTGCAAAGCCAGATGGTACGAATGGCTGGATCCAAGTATTAAAAAAACTGAATGGTCCAGAGAAGAGGAAGAAAAACTCTTGCACCTGGCCAAGCTGATGCCAACGCAGTGGAGGACCATTGCTCCGATCATAGGAAGAACAGCAGCCCAGTGCTTGGAACACTATGAGTTCCTCCTGGACAAAACTGCCCAAAGGGACAATGAAGAAGAAACAACAGATGACCCCCGAAAGCTTAAGCCTGGAGAGATAGATCCAAACCCAGAGACCAAGCCAGCCCGGCCTGACCCGATAGACATGGATGAGGATGAACTTGAGATGCTCTCCGAGGCTCGAGCCCGTCTGGCCAATACTCAAGGAAAGAAGGCTAAAAGGAAAGCAAGAGAAAAGCAGTTGGAAGAAGCCAGGCGCCTTGCTGCCCTCCAGAAAAGACGAGAGCTTCGAGCAGCTGGCATAGAGATTCAGAAGAAAAGGAAAAAGAAGAGAGGCGTTGATTATAATGCTGAAATCCCATTTGAAAAAAAGCCTGCTCTTGGTTTTTATGATACTTCTGAGGAGAATTACCAGGCCCTTGATGCAGATTTCAGGAAACTGCGGCAGCAGGATCTTGATGGAGAGCTAAGATCTGAAAAAGAAGGAAGAGATAGGAAAAAAGACAAACAGCATTTAAAAAGGAAAAAGGAGTCTGATTTACCATCAGCTATCCTCCAAACCAGTGGTGTCTCTGAGTTCACTAAAAAGAGAAGCAAACTTGTGTTGCCTGCGCCTCAGGATGAAATTCTGAAAGCAGCGGTAATGAAATATGGGAAAAACCAGTGGTCTAGGATTGCCTCATTGCTGCATAGGAAATCGGCAAAGCAGTGCAAAGCCAGATGGTACGAATGGCTGGATCCAAGTATTAAAAAAACTGAATGGTCCAGAGAAGAGGAAGAAAAACTCTTGCACCTGGCCAAGCTGATGCCAACGCAGTGGAGGACCATTGCTCCGATCATAGGAAGAACAGCAGCCCAGTGCTTGGAACACTATGAGTTCCTCCTGGACAAAACTGCCCAAAGGGACAATGAAGAAGAAACAACAGATGACCCCCGAAAGCTTAAGCCTGGAGAGATAGATCCAAACCCAGAGACCAAGCCAGCCCGGCCTGACCCGATAGACATGGATGAGGATGAACTTGAGATGCTCTCCGAGGCTCGAGCCCGTCTGGCCAATACTCAAGGAAAGAAGGCTAAAAGGAAAGCAAGAGAAAAGCAGTTGGAAGAAGCCAGGCGCCTTGCTGCCCTCCAGAAAAGACGAGAGCTTCGAGCAGCTGGCATAGAGATTCAGAAGAAAAGGAAAAAGAAGAGAGGCGTTGATTATAATGCTGAAATCCCATTTGAAAAAAAGCCTGCTCTTGGTTTTTATGATACTTCTGAGGAGAATTACCAGGCCCTTGATGCAGATTTCAGGAAACTGCGGCAGCAGGATCTTGATGGAGAGCTAAGATCTGAAAAAGAAGGAAGAGATAGGAAAAAAGACAAACAGCATTTAAAAAGGAAAAAGGAGTCTGATTTACCATCAGCTATCCTCCAAACCAGTGGTGTCTCTGAGTTCACTAAAAAGAGAAGCAAACTTGTGTTGCCTGCGCCTCAG
Peptide sequence:
MKYGKNQWSRIASLLHRKSAKQCKARWYEWLDPSIKKTEWSREEEEKLLHLAKLMPTQWRTIAPIIGRTAAQCLEHYEFLLDKTAQRDNEEETTDDPRKLKPGEIDPNPETKPARPDPIDMDEDELEMLSEARARLANTQGKKAKRKAREKQLEEARRLAALQKRRELRAAGIEIQKKRKKKRGVDYNAEIPFEKKPALGFYDTSEENYQALDADFRKLRQQDLDGELRSEKEGRDRKKDKQHLKRKKESDLPSAILQTSGVSEFTKKRSKLVLPAPQDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWYEWLDPSIKKTEWSREEEEKLLHLAKLMPTQWRTIAPIIGRTAAQCLEHYEFLLDKTAQRDNEEETTDDPRKLKPGEIDPNPETKPARPDPIDMDEDELEMLSEARARLANTQGKKAKRKAREKQLEEARRLAALQKRRELRAAGIEIQKKRKKKRGVDYNAEIPFEKKPALGFYDTSEENYQALDADFRKLRQQDLDGELRSEKEGRDRKKDKQHLKRKKESDLPSAILQTSGVSEFTKKRSKLVLPAPQ
IRESfinder result
IRESfinder score
0.390861821
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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