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mmu_circCdan1_2447
Basic information of circular RNA
PanCircBase ID:
mmu_circCdan1_2447
mm39_Chr. Position ID:
chr2|120575499|120590835|-
Gene name:
Cdan1
Transcript:
ENSMUST00000148285.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
14,13,12,11,10
Exon/intron offsets:
0,3416,5219,10811,15178
Genomic length:
15336
Exon/intron sizes in nt:
1,27,15,89,21,22,17,150
Flanking exon/introns:
chr2:120562224-120575499|chr2:120590835-120603709
Splice length:
2447
Other database IDs:
CIRCpedia: MMU_CIRCpedia_228477, circAtlas: mmu-Cdan1_0028
Human Ortholog IDs:
Mature spliced Sequence:
CTTCTAACATCCGTGTTTGACAATAGCATCAAGACCTTTGGAGTAATTGAGAGTGACCCGTTTGACTGGGAGAAGAGTGGAACTGATGGCTCCCTGACAACCACCACCACCTCTGCCACCCCTCAGCTGCACACCCGCCTGACCCCTGCTGCTATCGGAATTGCAAATGCCACCCCCATCCCAGGAGACTTGCTTCGAGAAAATACAGATGAAGTGTTTCCAGATGAACAGCTTAGTGATGGGGAGAACGGAATCCCTGTTGGTGTATCACCAGATAAATTGCCTGGATCTCTGGGGCACCCACGCCCTCAGGAAAAGGATGTCTGGGAAGAGATGGATATCAACAAGAACAAGATAAAGCTGGGAATTTGCAAAGCAGCTACTGAAGAAGAAAATAGCCATGGTCAAGTAAATGGCATACTCAATGCTCCAAGCCTTGGTTCACCAATTCGTGTCCGATCAGAGATTACTCAGCCAGACAGAGATGTTCCGTTAGTAAGGAAGCTACGTTCTATTCACAGCTTTGAGCTGGAAAAACGTTTGACACTTGAGCCAAAGCCAGATACTGACAAGTTTCTGGAGACCTGCATGGAGAAAATGCAGAAAGATTCCAGTGCAGGAAAAGAACCTGTCCCCCCTGCTCTGCCTCATAAGCCGTGTGTCCCCGTCGTGACCCACACTGACCACATCTGGCACTATGATGACGAATATCTTCCTGATGCCTCCAAGCCTGCCTCTGCCAACACCCCGGAGCAGGCAGATGGTGGTGGCAGCAACGGATTTATAGCTGTTAACTTAAGCTCTTGCAAACAGGAGGTTGATTCCAAAGAATGGGTGATTGTGGACAAGGAGCAAGACCTTCAGGACTTTAGGACAAATGAGGTGTTAGGCCATAAGACAACTGGAAGCCCTTCAGATGAGGAGCCTGAAGTGCTTCAGGTCCTTGAGGGATCACCTCAAGATGAAAAGATCCAAGTAGGTCCTTGGACTGACAACCATCACTTAAAGAAGGAAAGCTCAGGTGTGGTTTTAGCACTTTCTGCTGAATGCCCTGCTACTGCTGCTTCAGAACTGTACACAGATAGGCTAGACCTCCAGGCTGGAGCTGCAAGTCAGTTCATCACAGTGACTCCCACAAGTCCCATGGAGGCACAAGCAGAAGGACCCCTGACTGCGATTACAATTCCTAGACCTTCTGTGGCATCAACACAGTCAACTTCAGGAAGCTTTCACTATGGCCCACAACCAGAGAAGAAAGATCTTCAGCCCTTGGAGCCCACTGTAGAACTGTACTCTCCAAGGGAGAACTTCTCCGGCTTGGTTGTGACAGAGGGTGAACTAGCTAGCGGAGGAAGCAGAGTGGATTTGGGACTTCAGATAGATCACACTGGTCATGACATGTTACCCAACATGAGAGATGGTGACACATCTCAAGACTTGGGACCAAAAGACCCTCCTGACCATAATAGATTAGCTGTGAAAGAATTTGAACATCTCCCTGGAGAAACAGAAGAGAGAAGCCTTCTTCTGGGCTCAGAGAATGAAGATGAGAGGTTAAGTAAAGGGCAGCACTGTATTGAAGTCTCTTCCCCAGGAGAGTTAGTGACTGCAGAGAGGGCTCAGTTAGCTGCCACAGAACCTCTGCATGTATCAGAGACACAGAACTGTAGTGTGCTACCAAATCAGGACAAAACCCATGAGATAATGAAGCTTTTGGCAGTTGGAACTTCAGAAATTTCTCCTCAAGCCATTGACCCACATGCTGAAGGGCAGATAGGCCAGATGGCAGCAATGCAGAAAAATAAGCTATTTAAAGATGATGGTATTCAGAGTGAAAGCTTGCCAAGGCAGCAGGGAGACCTCTCTGCTTTTTTGCACCAAGAGGGTAAGAGAGAGAAAGTTGTCCCTAGAAATGGAGAGCTCTATCATTGTGTCTCAGAGAATGAGCATGGTCCTCCTACTCGGAAGGACATGCTCCGGTCATCCTTTGTGACCAGGCACAGCCGGATCCCTGTTTTAGCACAAGAAATAGACTCAACTTTTGAATCATCCTCTGCTATTTCTGCAAAAGAAAAGCTTCTACAGAAGAAAGCCTATCAGCCAGAAATAGTCAAACTTCTTGTAGAAAAAAGGCAGTTCAAGTCTTTCCTGGGAGACCTCTCAAGTGCCTCTGATAAGCTGATAGAGGAGAAACTAGCCGCTGTTCCAGTCCCTTTTTCTGAGGAGGAAGTCTTCGCTCCCTTTTCTAGACTGGCAGCAGATTCCCACCTGAGTAGATCAGTTGAAGATAGCTTTCTGTCACCCATCATCTCCCAGGCTAGAAAGAGCAAGATTCCAAGGCCAGTATCCTGGGTCAGCACAGATCAAATTAATGGCTCCGCTTCACCTCAGTTCTTGCCTCGGCCACCACCAGGAAAGCCACCAGTCAGGCCTGGAGTAGAAGCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TAATGGCTCCGCTTCACCTC
59.82
GTCAGGGAGCCATCAGTTCC
60.11
176
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCACCTCAGTTCTTGCCTCG
59.68
GTCAGGGAGCCATCAGTTCC
60.11
163
PCR template sequence:
CCTGGGTCAGCACAGATCAAATTAATGGCTCCGCTTCACCTCAGTTCTTGCCTCGGCCACCACCAGGAAAGCCACCAGTCAGGCCTGGAGTAGAAGCCAGCTTCTAACATCCGTGTTTGACAATAGCATCAAGACCTTTGGAGTAATTGAGAGTGACCCGTTTGACTGGGAGAAGAGTGGAACTGATGGCTCCCTGACAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
22
Interacting miRNAs (#binding sites)
mmu-miR-298-5p(3), mmu-miR-541-5p(3), mmu-miR-20b-5p(1), mmu-miR-106a-5p(1), mmu-miR-20a-5p(1), mmu-miR-17-5p(1), mmu-miR-199a-5p(1), mmu-miR-7b-5p(1), mmu-miR-221-3p(1), mmu-miR-15b-5p(1), mmu-miR-106b-5p(1), mmu-miR-335-5p(1), mmu-miR-709(1), mmu-miR-320-3p(1), mmu-miR-139-5p(1), mmu-miR-136-5p(1), mmu-miR-127-3p(1), mmu-miR-370-3p(1), mmu-miR-539-5p(1), mmu-miR-3470b(1), mmu-miR-697(1), mmu-miR-542-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GAGTAGAAGCCAGCTTCTAACATCCG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCDAN1_2447_ORF_1
1.0864
0.137883592
0.999996392
2121
ORF sequence:
ATGGATATCAACAAGAACAAGATAAAGCTGGGAATTTGCAAAGCAGCTACTGAAGAAGAAAATAGCCATGGTCAAGTAAATGGCATACTCAATGCTCCAAGCCTTGGTTCACCAATTCGTGTCCGATCAGAGATTACTCAGCCAGACAGAGATGTTCCGTTAGTAAGGAAGCTACGTTCTATTCACAGCTTTGAGCTGGAAAAACGTTTGACACTTGAGCCAAAGCCAGATACTGACAAGTTTCTGGAGACCTGCATGGAGAAAATGCAGAAAGATTCCAGTGCAGGAAAAGAACCTGTCCCCCCTGCTCTGCCTCATAAGCCGTGTGTCCCCGTCGTGACCCACACTGACCACATCTGGCACTATGATGACGAATATCTTCCTGATGCCTCCAAGCCTGCCTCTGCCAACACCCCGGAGCAGGCAGATGGTGGTGGCAGCAACGGATTTATAGCTGTTAACTTAAGCTCTTGCAAACAGGAGGTTGATTCCAAAGAATGGGTGATTGTGGACAAGGAGCAAGACCTTCAGGACTTTAGGACAAATGAGGTGTTAGGCCATAAGACAACTGGAAGCCCTTCAGATGAGGAGCCTGAAGTGCTTCAGGTCCTTGAGGGATCACCTCAAGATGAAAAGATCCAAGTAGGTCCTTGGACTGACAACCATCACTTAAAGAAGGAAAGCTCAGGTGTGGTTTTAGCACTTTCTGCTGAATGCCCTGCTACTGCTGCTTCAGAACTGTACACAGATAGGCTAGACCTCCAGGCTGGAGCTGCAAGTCAGTTCATCACAGTGACTCCCACAAGTCCCATGGAGGCACAAGCAGAAGGACCCCTGACTGCGATTACAATTCCTAGACCTTCTGTGGCATCAACACAGTCAACTTCAGGAAGCTTTCACTATGGCCCACAACCAGAGAAGAAAGATCTTCAGCCCTTGGAGCCCACTGTAGAACTGTACTCTCCAAGGGAGAACTTCTCCGGCTTGGTTGTGACAGAGGGTGAACTAGCTAGCGGAGGAAGCAGAGTGGATTTGGGACTTCAGATAGATCACACTGGTCATGACATGTTACCCAACATGAGAGATGGTGACACATCTCAAGACTTGGGACCAAAAGACCCTCCTGACCATAATAGATTAGCTGTGAAAGAATTTGAACATCTCCCTGGAGAAACAGAAGAGAGAAGCCTTCTTCTGGGCTCAGAGAATGAAGATGAGAGGTTAAGTAAAGGGCAGCACTGTATTGAAGTCTCTTCCCCAGGAGAGTTAGTGACTGCAGAGAGGGCTCAGTTAGCTGCCACAGAACCTCTGCATGTATCAGAGACACAGAACTGTAGTGTGCTACCAAATCAGGACAAAACCCATGAGATAATGAAGCTTTTGGCAGTTGGAACTTCAGAAATTTCTCCTCAAGCCATTGACCCACATGCTGAAGGGCAGATAGGCCAGATGGCAGCAATGCAGAAAAATAAGCTATTTAAAGATGATGGTATTCAGAGTGAAAGCTTGCCAAGGCAGCAGGGAGACCTCTCTGCTTTTTTGCACCAAGAGGGTAAGAGAGAGAAAGTTGTCCCTAGAAATGGAGAGCTCTATCATTGTGTCTCAGAGAATGAGCATGGTCCTCCTACTCGGAAGGACATGCTCCGGTCATCCTTTGTGACCAGGCACAGCCGGATCCCTGTTTTAGCACAAGAAATAGACTCAACTTTTGAATCATCCTCTGCTATTTCTGCAAAAGAAAAGCTTCTACAGAAGAAAGCCTATCAGCCAGAAATAGTCAAACTTCTTGTAGAAAAAAGGCAGTTCAAGTCTTTCCTGGGAGACCTCTCAAGTGCCTCTGATAAGCTGATAGAGGAGAAACTAGCCGCTGTTCCAGTCCCTTTTTCTGAGGAGGAAGTCTTCGCTCCCTTTTCTAGACTGGCAGCAGATTCCCACCTGAGTAGATCAGTTGAAGATAGCTTTCTGTCACCCATCATCTCCCAGGCTAGAAAGAGCAAGATTCCAAGGCCAGTATCCTGGGTCAGCACAGATCAAATTAATGGCTCCGCTTCACCTCAGTTCTTGCCTCGGCCACCACCAGGAAAGCCACCAGTCAGGCCTGGAGTAGAAGCCAGCTTCTAA
Peptide sequence:
MDINKNKIKLGICKAATEEENSHGQVNGILNAPSLGSPIRVRSEITQPDRDVPLVRKLRSIHSFELEKRLTLEPKPDTDKFLETCMEKMQKDSSAGKEPVPPALPHKPCVPVVTHTDHIWHYDDEYLPDASKPASANTPEQADGGGSNGFIAVNLSSCKQEVDSKEWVIVDKEQDLQDFRTNEVLGHKTTGSPSDEEPEVLQVLEGSPQDEKIQVGPWTDNHHLKKESSGVVLALSAECPATAASELYTDRLDLQAGAASQFITVTPTSPMEAQAEGPLTAITIPRPSVASTQSTSGSFHYGPQPEKKDLQPLEPTVELYSPRENFSGLVVTEGELASGGSRVDLGLQIDHTGHDMLPNMRDGDTSQDLGPKDPPDHNRLAVKEFEHLPGETEERSLLLGSENEDERLSKGQHCIEVSSPGELVTAERAQLAATEPLHVSETQNCSVLPNQDKTHEIMKLLAVGTSEISPQAIDPHAEGQIGQMAAMQKNKLFKDDGIQSESLPRQQGDLSAFLHQEGKREKVVPRNGELYHCVSENEHGPPTRKDMLRSSFVTRHSRIPVLAQEIDSTFESSSAISAKEKLLQKKAYQPEIVKLLVEKRQFKSFLGDLSSASDKLIEEKLAAVPVPFSEEEVFAPFSRLAADSHLSRSVEDSFLSPIISQARKSKIPRPVSWVSTDQINGSASPQFLPRPPPGKPPVRPGVEASF
IRESfinder result
IRESfinder score
0.578491649
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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