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mmu_circ9530036O11Rik_1870
Basic information of circular RNA
PanCircBase ID:
mmu_circ9530036O11Rik_1870
mm39_Chr. Position ID:
chr5|28873977|28879105|+
Gene name:
9530036O11Rik
Transcript:
ENSMUST00000181202.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
3,4
Exon/intron offsets:
0,3539
Genomic length:
5128
Exon/intron sizes in nt:
28,11,589
Flanking exon/introns:
chr5:28769467-28873977|chr5:28879105-28915930
Splice length:
1870
Other database IDs:
CIRCpedia: MMU_CIRCpedia_211788, circAtlas: mmu-9530036O11Rik_0001
Human Ortholog IDs:
Mature spliced Sequence:
CACAGCTATGAGTTCCCCCAAGGACTTTGTCCATAGGGATGCCAACAAGAGGGGGCCAGGAAGATGGAAAGTGTGCTCCACCTCCAATCTATGTCCATGCTTCTTCCAGCTGGATTCTTAAGAAGGACTTGACATGTTTGTTGGGGTCCCAACATCAGGCCCCATTCTGTTGCTGATACAAGACAGAGCGACTGAAATGACCAAGTGAGCTGTGGTGCTCAGGCAAGACACCTTGCAATGTGGAGATCCTGTGAGCTCAGAAAGTGTTACAACAGCCCCAAGTGAGGTGAACTACAGAAAAGTAACCTGTGCATTATCAGCAGCATCTAAGATTCTGCTGACTGCTTCTCCATACAACTTTGGATGGTAAAGAAGAGGCTTCAAGGTGATCTTGTCCAGAGCTTTGGCATCCTCTTGGAAACTTGAAGACAAAGCCTGAGCCTTAAAGGATTTCTGATAAACTCTTCCAAGGTACCTGGAGAGGGGGACACTGTCTGAAGTGGCTCCCTGTCTGAACCTTGGCTCTTTGCACCCCACTTGGTCTCCTTTACCACACAGGGCTCTACTTTTCTGCAGTTCCTACAGAATTCTATTTCTGTCTAGTTCCTCTGCAGGATTCTGTCCTCAGAAGGACCAGTCAATCAGAGTTGCACCCTTGGGAGCAGGATCTACCCCTGTAAGTCTCTGGGTTTCCAAAGATGAGCACACAGCATATCACATATTTTCGATGGAAGAAATGGCTGAACCAGAGAAAATCAGACTAAGATGTCACCATCCCATGTGAGGGGCTCAGCTGAGAGCCTGCATGCTCATGAGTCCAAGTAGAGCCTTTTGGAGTGAAGTAGGGGAATCTTGTCAGTATGGTGTCTATACCCACCAGAGGTTCACAGAACAGGGTGCTCTGCCTTCATAGAGGGGTGTGATATCCATGGAGACACAGTACCTTTAGGAGGGGCACAATCCCTATAGGAGAAATGTTATCCCCACAGAATGGACATTGCTGGACAGAGTACTCATGAGAACACAGTAGCTCAAGGAGGAGGTCAATCCACTGTAAAGCTGGCCAACTCACAGTTGGTTGGCTGTGTCCAGATCCATCCCACCATAGTCTGTTTCTTCTTGCCTGGCCATTGCTGCTGCTCACCACCCCAGCTCCACTTCTTGGCTCAAGCACAGTAGCAACAGCCACTACAGCCTGCTGCTGCCCATGGTAATAAAAGATTGCAACTCTCCCAAGGGTCCATGATATGGTTGGCCTGCCCTGCCTAGCCTTGTACTTACCAGACCTCTTCATGCCCTTCAGGGTCTGTTACATGCTCTCTGCAATCCACAGAGATGCCTACACAACTGAGCACATGTCACTAAGTATGAGAGACCTACTTTTTGCCCACTATGTCTACTTCCTGTGTCATACATAGTTTCTGCTGCAGTGCTTTCTGCCTCTGTGTGAAAGTAGATATCTTGTTCAGTCAATGATACATACACCAAGGTTGAATGTACAGGACAAGGGCACAGTGGTCATCATAAGAGTCAGGAGATGATTCATTCAACCTGATGAGACCCTTCTCCAGTCAGCTCATGGTCAGAGGCTAATCCATGGGATGTCCTGTAGCACTGCCTTCCTTCGAAGGAATCTGTTCTTATAAGAACCTTCTCTTATTGTTAGTTTATTTTGAATGAACCATTTAAGGTCCACATCTAAAAGATCAGGCACCTAAGTGTTAGAGAAGTTGGAAGCTTATAGAAAGCCGCAATACTAAGTTGATCTCCTCTTCTCTGAGTACTACACAGGAGGATTCTACATGCCAGATGGTCCTTGTAAGATCCATCCATGCCAGCACAGGAGAGATATGTTTCTTCTTATGTCTAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACATGCCAGATGGTCCTTGT
59.3
ACTTTCCATCTTCCTGGCCC
59.67
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACATGCCAGATGGTCCTTGT
59.3
CTTTCCATCTTCCTGGCCCC
60.4
141
PCR template sequence:
TCTTCTCTGAGTACTACACAGGAGGATTCTACATGCCAGATGGTCCTTGTAAGATCCATCCATGCCAGCACAGGAGAGATATGTTTCTTCTTATGTCTAGCACAGCTATGAGTTCCCCCAAGGACTTTGTCCATAGGGATGCCAACAAGAGGGGGCCAGGAAGATGGAAAGTGTGCTCCACCTCCAATCTATGTCCATGC
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-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-181a-5p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-709(1), mmu-miR-324-5p(1), mmu-miR-23a-3p(1), mmu-miR-181b-5p(1), mmu-miR-495-3p(1), mmu-miR-431-5p(1), mmu-miR-411-3p(1), mmu-miR-218-5p(1), mmu-miR-382-5p(1), mmu-miR-297a-5p(1), mmu-miR-342-5p(1), mmu-miR-690(1), mmu-miR-377-3p(1), mmu-miR-1187(1), mmu-miR-484(1), mmu-miR-3061-5p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TTCTTATGTCTAGCACAGCTATGAGT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRC9530036O11RIK_1870_ORF_3
0.688
-0.056330294
0.051294514
189
ORF sequence:
ATGCCAGATGGTCCTTGTAAGATCCATCCATGCCAGCACAGGAGAGATATGTTTCTTCTTATGTCTAGCACAGCTATGAGTTCCCCCAAGGACTTTGTCCATAGGGATGCCAACAAGAGGGGGCCAGGAAGATGGAAAGTGTGCTCCACCTCCAATCTATGTCCATGCTTCTTCCAGCTGGATTCTTAA
Peptide sequence:
MPDGPCKIHPCQHRRDMFLLMSSTAMSSPKDFVHRDANKRGPGRWKVCSTSNLCPCFFQLDS
IRESfinder result
IRESfinder score
0.637098411
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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