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mmu_circCdc5l_1552
Basic information of circular RNA
PanCircBase ID:
mmu_circCdc5l_1552
mm39_Chr. Position ID:
chr17|45715519|45730745|-
Gene name:
Cdc5l
Transcript:
ENSMUST00000024727.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
14,13,12,11,10,9,8,7,6
Exon/intron offsets:
0,3202,3742,6180,7234,8528,10959,12351,15007
Genomic length:
15226
Exon/intron sizes in nt:
1,98,24,38,11,65,16,31,00,00,00,00,000
Flanking exon/introns:
chr17:45704131-45715519|chr17:45730745-45735426
Splice length:
1552
Other database IDs:
CIRCpedia: MMU_CIRCpedia_216070, circAtlas: mmu-Cdc5l_0001
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_117650
Human Ortholog IDs:
Mature spliced Sequence:
GCGCCTTGCTGCCCTCCAGAAAAGACGAGAGCTTCGAGCAGCTGGCATAGAGATTCAGAAGAAAAGGAAAAAGAAGAGAGGCGTTGATTATAATGCTGAAATCCCATTTGAAAAAAAGCCTGCTCTTGGTTTTTATGATACTTCTGAGGAGAATTACCAGGCCCTTGATGCAGATTTCAGGAAACTGCGGCAGCAGGATCTTGATGGAGAGCTAAGATCTGAAAAAGAAGGAAGAGATAGGAAAAAAGACAAACAGCATTTAAAAAGGAAAAAGGAGTCTGATTTACCATCAGCTATCCTCCAAACCAGTGGTGTCTCTGAGTTCACTAAAAAGAGAAGCAAACTTGTGTTGCCTGCGCCTCAGATTTCAGATGCTGAACTCCAGGAAGTTGTCAAGGTAGGCCAGGCCAGTGAAGTCGCACGGCAGACGGCGGAGGAGTCAGGAATAACAAACTCTGCTTCTAGCACTCTCCTGTCTGAGTACAATGTCACAAACAACAGCATCGCTCTGAGAACACCACGGACACCAGCCTCTCAAGACAGGATTCTACAGGAAGCTCAGAACCTCATGGCCTTGACCAATGTGGACACTCCATTGAAAGGTGGGCTTAATACCCCACTGCATGAGAGTGACTTCTCTGGTGTGACCCCACAGCGGCAAGTTGTGCAGACTCCAAATACAGTTCTGTCTACCCCTTTCAGGACTCCTTCTAATGGAGCTGAAGGGCTGACTCCCCGAAGTGGAACAACTCCTAAACCAGTCACTAATGCCACCCCAGGTAGAACACCACTTAGAGACAAGTTAAACATTAATCCAGAGGATGGAATGGCAGACTACAGTGACCCCTCTTACGTGAAGCAGATGGAAAGAGAATCTCGTGAACATCTCCGTTTAGGGTTGTTAGGCCTCCCCGCACCTAAGAATGATTTTGAAATTGTTCTGCCTGAAAATGCCGAGAAGGAACTAGAAGAACGTGAAATAGATGATACCTACATTGAAGATGCTGCTGATGTGGATGCTCGAAAGCAGGCCATCCGAGATGCTGAGCGTGTAAAGGAAATGAAACGAATGCATAAAGCTGTTCAGAAGGATCTGCCCAGGCCGTCTGAAGTAAATGAAACTATTTTAAGACCTTTAAATGTAGAACCACCTCTAACAGATTTACAGAAGAGTGAAGAACTGATCAAAAAAGAAATGATTACGATGCTTCATTATGATCTTCTACATCATCCCTACGAACCATCTGGAAATAAAAAAGGAAAAAATGTTGGGTTTGCTACCAACAATTCAGAGCACATTACCTATCTTGAGCACAGCCCTTATGAGAAGTTCTCCAAAGAAGATCTGAAAAAGGCCCAGGATGCTCTGGTACAAGAGATGGAAGTGGTCAAACAAGGAATGAGCCATGGCGAACTCTCCAGTGAAGCTTACAACCAGGTGTGGGAGGAATGCTACAGTCAAGTCCTCTATCTTCCTGCTCAGAGCCGCTACACTCGTGCTAATCTTGCTAGCAAAAAGGACAGAATTGAATCACTTGAAAAGAGACTTGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTATCTTCCTGCTCAGAGCCG
60
AATCTCTATGCCAGCTGCTCG
60.27
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCTCTATCTTCCTGCTCAGAGC
59.7
CTCTATGCCAGCTGCTCGAA
59.9
140
PCR template sequence:
CTACAGTCAAGTCCTCTATCTTCCTGCTCAGAGCCGCTACACTCGTGCTAATCTTGCTAGCAAAAAGGACAGAATTGAATCACTTGAAAAGAGACTTGAGGCGCCTTGCTGCCCTCCAGAAAAGACGAGAGCTTCGAGCAGCTGGCATAGAGATTCAGAAGAAAAGGAAAAAGAAGAGAGGCGTTGATTATAATGCTGAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
13
Interacting miRNAs (#binding sites)
mmu-miR-138-5p(2), mmu-miR-134-5p(1), mmu-miR-16-5p(1), mmu-miR-122-5p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-127-3p(1), mmu-miR-29b-1-5p(1), mmu-miR-370-3p(1), mmu-miR-758-3p(1), mmu-miR-5101(1), mmu-miR-146b-5p(1), mmu-miR-542-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AAAGAGACTTGAGGCGCCTTGCTGCC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCDC5L_1552_ORF_1
1.0689
0.193286562
0.999939676
1698
ORF sequence:
ATGGCGAACTCTCCAGTGAAGCTTACAACCAGGTGTGGGAGGAATGCTACAGTCAAGTCCTCTATCTTCCTGCTCAGAGCCGCTACACTCGTGCTAATCTTGCTAGCAAAAAGGACAGAATTGAATCACTTGAAAAGAGACTTGAGGCGCCTTGCTGCCCTCCAGAAAAGACGAGAGCTTCGAGCAGCTGGCATAGAGATTCAGAAGAAAAGGAAAAAGAAGAGAGGCGTTGATTATAATGCTGAAATCCCATTTGAAAAAAAGCCTGCTCTTGGTTTTTATGATACTTCTGAGGAGAATTACCAGGCCCTTGATGCAGATTTCAGGAAACTGCGGCAGCAGGATCTTGATGGAGAGCTAAGATCTGAAAAAGAAGGAAGAGATAGGAAAAAAGACAAACAGCATTTAAAAAGGAAAAAGGAGTCTGATTTACCATCAGCTATCCTCCAAACCAGTGGTGTCTCTGAGTTCACTAAAAAGAGAAGCAAACTTGTGTTGCCTGCGCCTCAGATTTCAGATGCTGAACTCCAGGAAGTTGTCAAGGTAGGCCAGGCCAGTGAAGTCGCACGGCAGACGGCGGAGGAGTCAGGAATAACAAACTCTGCTTCTAGCACTCTCCTGTCTGAGTACAATGTCACAAACAACAGCATCGCTCTGAGAACACCACGGACACCAGCCTCTCAAGACAGGATTCTACAGGAAGCTCAGAACCTCATGGCCTTGACCAATGTGGACACTCCATTGAAAGGTGGGCTTAATACCCCACTGCATGAGAGTGACTTCTCTGGTGTGACCCCACAGCGGCAAGTTGTGCAGACTCCAAATACAGTTCTGTCTACCCCTTTCAGGACTCCTTCTAATGGAGCTGAAGGGCTGACTCCCCGAAGTGGAACAACTCCTAAACCAGTCACTAATGCCACCCCAGGTAGAACACCACTTAGAGACAAGTTAAACATTAATCCAGAGGATGGAATGGCAGACTACAGTGACCCCTCTTACGTGAAGCAGATGGAAAGAGAATCTCGTGAACATCTCCGTTTAGGGTTGTTAGGCCTCCCCGCACCTAAGAATGATTTTGAAATTGTTCTGCCTGAAAATGCCGAGAAGGAACTAGAAGAACGTGAAATAGATGATACCTACATTGAAGATGCTGCTGATGTGGATGCTCGAAAGCAGGCCATCCGAGATGCTGAGCGTGTAAAGGAAATGAAACGAATGCATAAAGCTGTTCAGAAGGATCTGCCCAGGCCGTCTGAAGTAAATGAAACTATTTTAAGACCTTTAAATGTAGAACCACCTCTAACAGATTTACAGAAGAGTGAAGAACTGATCAAAAAAGAAATGATTACGATGCTTCATTATGATCTTCTACATCATCCCTACGAACCATCTGGAAATAAAAAAGGAAAAAATGTTGGGTTTGCTACCAACAATTCAGAGCACATTACCTATCTTGAGCACAGCCCTTATGAGAAGTTCTCCAAAGAAGATCTGAAAAAGGCCCAGGATGCTCTGGTACAAGAGATGGAAGTGGTCAAACAAGGAATGAGCCATGGCGAACTCTCCAGTGAAGCTTACAACCAGGTGTGGGAGGAATGCTACAGTCAAGTCCTCTATCTTCCTGCTCAGAGCCGCTACACTCGTGCTAATCTTGCTAGCAAAAAGGACAGAATTGAATCACTTGAAAAGAGACTTGAG
Peptide sequence:
MANSPVKLTTRCGRNATVKSSIFLLRAATLVLILLAKRTELNHLKRDLRRLAALQKRRELRAAGIEIQKKRKKKRGVDYNAEIPFEKKPALGFYDTSEENYQALDADFRKLRQQDLDGELRSEKEGRDRKKDKQHLKRKKESDLPSAILQTSGVSEFTKKRSKLVLPAPQISDAELQEVVKVGQASEVARQTAEESGITNSASSTLLSEYNVTNNSIALRTPRTPASQDRILQEAQNLMALTNVDTPLKGGLNTPLHESDFSGVTPQRQVVQTPNTVLSTPFRTPSNGAEGLTPRSGTTPKPVTNATPGRTPLRDKLNINPEDGMADYSDPSYVKQMERESREHLRLGLLGLPAPKNDFEIVLPENAEKELEEREIDDTYIEDAADVDARKQAIRDAERVKEMKRMHKAVQKDLPRPSEVNETILRPLNVEPPLTDLQKSEELIKKEMITMLHYDLLHHPYEPSGNKKGKNVGFATNNSEHITYLEHSPYEKFSKEDLKKAQDALVQEMEVVKQGMSHGELSSEAYNQVWEECYSQVLYLPAQSRYTRANLASKKDRIESLEKRLE
IRESfinder result
IRESfinder score
0.519095509
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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