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mmu_circDzip3_1203
Basic information of circular RNA
PanCircBase ID:
mmu_circDzip3_1203
mm39_Chr. Position ID:
chr16|48747904|48762566|-
Gene name:
Dzip3
Transcript:
ENSMUST00000121869.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
11
Exon/intron indexes:
31,30,29,28,27,26,25,24,23,22,21
Exon/intron offsets:
0,188,754,2074,3626,6252,7957,9428,10892,14110,14534
Genomic length:
14662
Exon/intron sizes in nt:
1,02,12,61,21,14,01,26,00,00,00,00,00,00,000
Flanking exon/introns:
chr16:48746465-48747904|chr16:48762566-48763819
Splice length:
1203
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GATTACAAAAGGCAACTGAAAACAGTGACATTTCGGTGGCAGGAAAATCAAATGCTGATCAAAAAGAAAGAAAAGATTATTGTATCTCTTAACCAACAAGTGGCTTTTGGGATCAATAAAATGTCCAAATTACAGCGCCAAATCCATGCTAAAGATGATGAAATCAAGAACCTTAAAGACCAACTTTCCTTGAAAAGATCTCAGTGGGAAATGGAGAAGCATAATCTGGAAAGCACAGTTAAAACATATTTAAACAAACTAAATGCAGAAACCAGCAGAGCCTTAACAGCCGAGGTGTACTTTTTACAGTGTCGTAGAGACTTTGGTTTACTACACCTCGAGCAGACAGAAAAAGAGTGCCTCAATCAGCTGGCCAGGGTGACACACATGGCAGCAAGCAACCTAGAATCACTTCAACTAAAAGCTGCTGTAGATAGTTGGAATGCTATTGTGGCGGATGTTCGAAACAAGATTGCATTCCTCAGGACACAGTACAATGAACAGATCAACAAGGTTAAGCAGGGGTTTGCCTTGAGTACCTTGCCTCCAGTCCAGCTTCCTCCACCACCACCAAGTCCTGAGATACTGATACAGCAATTCTTAGGAAGACCCCTTGTGAAGGAATCTTTCTTTCGACCCATACTTACTGTCCCTCAAATGCCTGCAGTTTGCCCTGGAGTCATCTCTGCAGCTGTACAACCTAGACCACCCCTGATGCCTGGTATAACCTGGGCTATGCCAACACCTATAGGTGATACTGTGTCACCGAGTGCAAGTCTGTGCAGTGAACCTCTCATGATAAACTGGGAGAGGATTACAGACAGGCTGAAAACTGCTTTTCCACAACAGACAAGGAAAGAGCTAACAGATTTCTTACAACAGTTAAAGGATTCTCATGGAAAGTCCGTGTCTCGACTGACATTTGATGAAATTGTTTACAAAATTTCTCAAATGATTGAGCCCAAGAAATCTGAGAGTGAAGAAAAGTCTGCTCAAGATGGCAATAATGCTTCACCCAGCCACACTGCATCACAGCCTAATGCTCCCCAGGACCCCAAGTCAGCACAAGGTTCTGCCACATGGGAAGGAGACAAAGACATGGATAATGAAGAGGAAGAAGAGGAGCCTTGTGTAATCTGTCATGAGAATTTGTCTCCAGAAAACCTTTCAGTTTTGCCTTGTGCTCACAAATTTCACTCTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGAAGAGGAAGAAGAGGAGCC
58.82
TTCCTGCCACCGAAATGTCA
59.89
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGAAGAGGAAGAAGAGGAGCCT
60.23
TTCCTGCCACCGAAATGTCA
59.89
142
PCR template sequence:
TAATGAAGAGGAAGAAGAGGAGCCTTGTGTAATCTGTCATGAGAATTTGTCTCCAGAAAACCTTTCAGTTTTGCCTTGTGCTCACAAATTTCACTCTCAGGATTACAAAAGGCAACTGAAAACAGTGACATTTCGGTGGCAGGAAAATCAAATGCTGATCAAAAAGAAAGAAAAGATTATTGTATCTCTTAACCAACAAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-30a-5p(1), mmu-miR-136-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-384-3p(1), mmu-miR-29b-2-5p(1), mmu-miR-466a-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ATTTCACTCTCAGGATTACAAAAGGC
siRNA sets
TTTTGTAATCCTGAGAGTG, TTTGTAATCCTGAGAGTGA, TTGTAATCCTGAGAGTGAA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDZIP3_1203_ORF_1
0.9897
0.06899013
0.999999002
2355
ORF sequence:
ATGCTGATCAAAAAGAAAGAAAAGATTATTGTATCTCTTAACCAACAAGTGGCTTTTGGGATCAATAAAATGTCCAAATTACAGCGCCAAATCCATGCTAAAGATGATGAAATCAAGAACCTTAAAGACCAACTTTCCTTGAAAAGATCTCAGTGGGAAATGGAGAAGCATAATCTGGAAAGCACAGTTAAAACATATTTAAACAAACTAAATGCAGAAACCAGCAGAGCCTTAACAGCCGAGGTGTACTTTTTACAGTGTCGTAGAGACTTTGGTTTACTACACCTCGAGCAGACAGAAAAAGAGTGCCTCAATCAGCTGGCCAGGGTGACACACATGGCAGCAAGCAACCTAGAATCACTTCAACTAAAAGCTGCTGTAGATAGTTGGAATGCTATTGTGGCGGATGTTCGAAACAAGATTGCATTCCTCAGGACACAGTACAATGAACAGATCAACAAGGTTAAGCAGGGGTTTGCCTTGAGTACCTTGCCTCCAGTCCAGCTTCCTCCACCACCACCAAGTCCTGAGATACTGATACAGCAATTCTTAGGAAGACCCCTTGTGAAGGAATCTTTCTTTCGACCCATACTTACTGTCCCTCAAATGCCTGCAGTTTGCCCTGGAGTCATCTCTGCAGCTGTACAACCTAGACCACCCCTGATGCCTGGTATAACCTGGGCTATGCCAACACCTATAGGTGATACTGTGTCACCGAGTGCAAGTCTGTGCAGTGAACCTCTCATGATAAACTGGGAGAGGATTACAGACAGGCTGAAAACTGCTTTTCCACAACAGACAAGGAAAGAGCTAACAGATTTCTTACAACAGTTAAAGGATTCTCATGGAAAGTCCGTGTCTCGACTGACATTTGATGAAATTGTTTACAAAATTTCTCAAATGATTGAGCCCAAGAAATCTGAGAGTGAAGAAAAGTCTGCTCAAGATGGCAATAATGCTTCACCCAGCCACACTGCATCACAGCCTAATGCTCCCCAGGACCCCAAGTCAGCACAAGGTTCTGCCACATGGGAAGGAGACAAAGACATGGATAATGAAGAGGAAGAAGAGGAGCCTTGTGTAATCTGTCATGAGAATTTGTCTCCAGAAAACCTTTCAGTTTTGCCTTGTGCTCACAAATTTCACTCTCAGGATTACAAAAGGCAACTGAAAACAGTGACATTTCGGTGGCAGGAAAATCAAATGCTGATCAAAAAGAAAGAAAAGATTATTGTATCTCTTAACCAACAAGTGGCTTTTGGGATCAATAAAATGTCCAAATTACAGCGCCAAATCCATGCTAAAGATGATGAAATCAAGAACCTTAAAGACCAACTTTCCTTGAAAAGATCTCAGTGGGAAATGGAGAAGCATAATCTGGAAAGCACAGTTAAAACATATTTAAACAAACTAAATGCAGAAACCAGCAGAGCCTTAACAGCCGAGGTGTACTTTTTACAGTGTCGTAGAGACTTTGGTTTACTACACCTCGAGCAGACAGAAAAAGAGTGCCTCAATCAGCTGGCCAGGGTGACACACATGGCAGCAAGCAACCTAGAATCACTTCAACTAAAAGCTGCTGTAGATAGTTGGAATGCTATTGTGGCGGATGTTCGAAACAAGATTGCATTCCTCAGGACACAGTACAATGAACAGATCAACAAGGTTAAGCAGGGGTTTGCCTTGAGTACCTTGCCTCCAGTCCAGCTTCCTCCACCACCACCAAGTCCTGAGATACTGATACAGCAATTCTTAGGAAGACCCCTTGTGAAGGAATCTTTCTTTCGACCCATACTTACTGTCCCTCAAATGCCTGCAGTTTGCCCTGGAGTCATCTCTGCAGCTGTACAACCTAGACCACCCCTGATGCCTGGTATAACCTGGGCTATGCCAACACCTATAGGTGATACTGTGTCACCGAGTGCAAGTCTGTGCAGTGAACCTCTCATGATAAACTGGGAGAGGATTACAGACAGGCTGAAAACTGCTTTTCCACAACAGACAAGGAAAGAGCTAACAGATTTCTTACAACAGTTAAAGGATTCTCATGGAAAGTCCGTGTCTCGACTGACATTTGATGAAATTGTTTACAAAATTTCTCAAATGATTGAGCCCAAGAAATCTGAGAGTGAAGAAAAGTCTGCTCAAGATGGCAATAATGCTTCACCCAGCCACACTGCATCACAGCCTAATGCTCCCCAGGACCCCAAGTCAGCACAAGGTTCTGCCACATGGGAAGGAGACAAAGACATGGATAATGAAGAGGAAGAAGAGGAGCCTTGTGTAATCTGTCATGAGAATTTGTCTCCAGAAAACCTTTCAGTTTTGCCTTGTGCTCACAAATTTCACTCTCAG
Peptide sequence:
MLIKKKEKIIVSLNQQVAFGINKMSKLQRQIHAKDDEIKNLKDQLSLKRSQWEMEKHNLESTVKTYLNKLNAETSRALTAEVYFLQCRRDFGLLHLEQTEKECLNQLARVTHMAASNLESLQLKAAVDSWNAIVADVRNKIAFLRTQYNEQINKVKQGFALSTLPPVQLPPPPPSPEILIQQFLGRPLVKESFFRPILTVPQMPAVCPGVISAAVQPRPPLMPGITWAMPTPIGDTVSPSASLCSEPLMINWERITDRLKTAFPQQTRKELTDFLQQLKDSHGKSVSRLTFDEIVYKISQMIEPKKSESEEKSAQDGNNASPSHTASQPNAPQDPKSAQGSATWEGDKDMDNEEEEEEPCVICHENLSPENLSVLPCAHKFHSQDYKRQLKTVTFRWQENQMLIKKKEKIIVSLNQQVAFGINKMSKLQRQIHAKDDEIKNLKDQLSLKRSQWEMEKHNLESTVKTYLNKLNAETSRALTAEVYFLQCRRDFGLLHLEQTEKECLNQLARVTHMAASNLESLQLKAAVDSWNAIVADVRNKIAFLRTQYNEQINKVKQGFALSTLPPVQLPPPPPSPEILIQQFLGRPLVKESFFRPILTVPQMPAVCPGVISAAVQPRPPLMPGITWAMPTPIGDTVSPSASLCSEPLMINWERITDRLKTAFPQQTRKELTDFLQQLKDSHGKSVSRLTFDEIVYKISQMIEPKKSESEEKSAQDGNNASPSHTASQPNAPQDPKSAQGSATWEGDKDMDNEEEEEEPCVICHENLSPENLSVLPCAHKFHSQ
IRESfinder result
IRESfinder score
0.654504376
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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