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mmu_circCntrob_1209
Basic information of circular RNA
PanCircBase ID:
mmu_circCntrob_1209
mm39_Chr. Position ID:
chr11|69196312|69206252|-
Gene name:
Cntrob
Transcript:
ENSMUST00000092973.6
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
14,13,12,11,10,9,8
Exon/intron offsets:
0,2456,3861,4491,5848,9224,9703
Genomic length:
9940
Exon/intron sizes in nt:
14,32,59,16,31,26,13,40,00,000
Flanking exon/introns:
chr11:69195147-69196312|chr11:69206252-69209771
Splice length:
1209
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GAAGAAGAAAGGCAAGCCCTGACTCTGAGGTTGGAGGTGGAGCAGCAGCAGTGCCGGACCCTCCAGGAAGAGCGGGATGAGGCTAGGGCTGGGCAGCTCAGTGAGCACCGGAAGCTGGAGGCCCTTCAAGTGGCTCTACAAGAGGAAAGGCAGGCCTGGATCAAGCAGGAACACCAGCTGAAGGAACGCCTTCAGGCACTGCAGGAGGAAGGCCAGGCTCAGCTGGAAAGAGAGAAGGGGAACAGCCAGAGGGAGGCCCAGGCAGCCTGGGAGACCCAGCAGCAGTTTGCACTGCTCCAGACTGAGGTGCGGCGGCTGGAAGGGGATCTGGACACAGTCCGGAGAGAGAGAGATGCACTGCAGCTGGAGATGAGCTTGGTCCAGGCCAGATATGAGAGCCAGCGGATCCAGATGGAGTCAGAGCTGGCTGTACAGCTGGAGCAGCGGGTGACTGAGCGGCTGGCAGAGGCTCAGGAGAACAGCCTGCGGCAGGCCGCCTCCCTCAGGGACCATCACAGGAAGCAGCTACAGGAACTGAGTGGACAGCACCAACAGGAACTGGCTGCCCAGCTGGCTCAGTTCAAGGTAGAAATGGCTGACCGGGAGGAACGCCAGCAGCAGGTGGCTCAGGACTATGAGCTCAGACTGGCAAGGGAGCAAGCTCGAGTGCGTGACCTGAAGAGCGGCAACCAACAACTGGAGGAGCAGCGGGCGGAGCTGGTGGAGCGGCTCCAAGCCATGCTGCAGGCCCACTGGGAGGAGGCCAACCAACTGCTCAGTACCACGCTTCTGCCTCCCAATCCGCAGGCTCCTCTTGCTGAGCCCTCCAGCCCCGGGCCTCTGGAGCCAGAGAAGGGGGAGAGGAGGACCTGGGCCATGCCTCCCATGGCTGTGGCTCTGAAACCTGTGTTGCAGCAGAGCCGAGAAGTGAAGGGTGATGTGCCTGGAGCTCCGTCTGTCCTCTGCAGCACCTCCCCAGATCTGAGCCTCCTGCTGGGACCCCCTTTCCAGAACCAGAACTCCTTTCAGCCCTTGGAACCCAAGCCTGATGTGACTCCACCCACAGCTGGGCCCTTCTCTGCATTGGAGGCTTTCACTGATGATCACAGGGCCGAACGCCCGTTTCCTGAGGAAGACCCGGGATCTGATGGCGATGCAAGGCTGCCACCTGCTTCTCAGCTTGAAGGCCTCAAGAACTTTTTGCAACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTTTCCTGAGGAAGACCCGG
60.04
CTAGCCTCATCCCGCTCTTC
59.68
174
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCGTTTCCTGAGGAAGACCC
60.04
CTAGCCTCATCCCGCTCTTC
59.68
176
PCR template sequence:
GGCCGAACGCCCGTTTCCTGAGGAAGACCCGGGATCTGATGGCGATGCAAGGCTGCCACCTGCTTCTCAGCTTGAAGGCCTCAAGAACTTTTTGCAACAGGAAGAAGAAAGGCAAGCCCTGACTCTGAGGTTGGAGGTGGAGCAGCAGCAGTGCCGGACCCTCCAGGAAGAGCGGGATGAGGCTAGGGCTGGGCAGCTCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
12
Interacting miRNAs (#binding sites)
mmu-miR-298-5p(2), mmu-miR-24-3p(2), mmu-miR-103-3p(1), mmu-let-7e-5p(1), mmu-miR-148b-3p(1), mmu-miR-709(1), mmu-miR-138-5p(1), mmu-miR-149-5p(1), mmu-miR-34b-5p(1), mmu-miR-107-3p(1), mmu-miR-670-5p(1), mmu-miR-3061-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTTTTTGCAACAGGAAGAAGAAAGGC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCNTROB_1209_ORF_1
1.2724
0.453003523
0.999998883
2049
ORF sequence:
ATGAGCTTGGTCCAGGCCAGATATGAGAGCCAGCGGATCCAGATGGAGTCAGAGCTGGCTGTACAGCTGGAGCAGCGGGTGACTGAGCGGCTGGCAGAGGCTCAGGAGAACAGCCTGCGGCAGGCCGCCTCCCTCAGGGACCATCACAGGAAGCAGCTACAGGAACTGAGTGGACAGCACCAACAGGAACTGGCTGCCCAGCTGGCTCAGTTCAAGGTAGAAATGGCTGACCGGGAGGAACGCCAGCAGCAGGTGGCTCAGGACTATGAGCTCAGACTGGCAAGGGAGCAAGCTCGAGTGCGTGACCTGAAGAGCGGCAACCAACAACTGGAGGAGCAGCGGGCGGAGCTGGTGGAGCGGCTCCAAGCCATGCTGCAGGCCCACTGGGAGGAGGCCAACCAACTGCTCAGTACCACGCTTCTGCCTCCCAATCCGCAGGCTCCTCTTGCTGAGCCCTCCAGCCCCGGGCCTCTGGAGCCAGAGAAGGGGGAGAGGAGGACCTGGGCCATGCCTCCCATGGCTGTGGCTCTGAAACCTGTGTTGCAGCAGAGCCGAGAAGTGAAGGGTGATGTGCCTGGAGCTCCGTCTGTCCTCTGCAGCACCTCCCCAGATCTGAGCCTCCTGCTGGGACCCCCTTTCCAGAACCAGAACTCCTTTCAGCCCTTGGAACCCAAGCCTGATGTGACTCCACCCACAGCTGGGCCCTTCTCTGCATTGGAGGCTTTCACTGATGATCACAGGGCCGAACGCCCGTTTCCTGAGGAAGACCCGGGATCTGATGGCGATGCAAGGCTGCCACCTGCTTCTCAGCTTGAAGGCCTCAAGAACTTTTTGCAACAGGAAGAAGAAAGGCAAGCCCTGACTCTGAGGTTGGAGGTGGAGCAGCAGCAGTGCCGGACCCTCCAGGAAGAGCGGGATGAGGCTAGGGCTGGGCAGCTCAGTGAGCACCGGAAGCTGGAGGCCCTTCAAGTGGCTCTACAAGAGGAAAGGCAGGCCTGGATCAAGCAGGAACACCAGCTGAAGGAACGCCTTCAGGCACTGCAGGAGGAAGGCCAGGCTCAGCTGGAAAGAGAGAAGGGGAACAGCCAGAGGGAGGCCCAGGCAGCCTGGGAGACCCAGCAGCAGTTTGCACTGCTCCAGACTGAGGTGCGGCGGCTGGAAGGGGATCTGGACACAGTCCGGAGAGAGAGAGATGCACTGCAGCTGGAGATGAGCTTGGTCCAGGCCAGATATGAGAGCCAGCGGATCCAGATGGAGTCAGAGCTGGCTGTACAGCTGGAGCAGCGGGTGACTGAGCGGCTGGCAGAGGCTCAGGAGAACAGCCTGCGGCAGGCCGCCTCCCTCAGGGACCATCACAGGAAGCAGCTACAGGAACTGAGTGGACAGCACCAACAGGAACTGGCTGCCCAGCTGGCTCAGTTCAAGGTAGAAATGGCTGACCGGGAGGAACGCCAGCAGCAGGTGGCTCAGGACTATGAGCTCAGACTGGCAAGGGAGCAAGCTCGAGTGCGTGACCTGAAGAGCGGCAACCAACAACTGGAGGAGCAGCGGGCGGAGCTGGTGGAGCGGCTCCAAGCCATGCTGCAGGCCCACTGGGAGGAGGCCAACCAACTGCTCAGTACCACGCTTCTGCCTCCCAATCCGCAGGCTCCTCTTGCTGAGCCCTCCAGCCCCGGGCCTCTGGAGCCAGAGAAGGGGGAGAGGAGGACCTGGGCCATGCCTCCCATGGCTGTGGCTCTGAAACCTGTGTTGCAGCAGAGCCGAGAAGTGAAGGGTGATGTGCCTGGAGCTCCGTCTGTCCTCTGCAGCACCTCCCCAGATCTGAGCCTCCTGCTGGGACCCCCTTTCCAGAACCAGAACTCCTTTCAGCCCTTGGAACCCAAGCCTGATGTGACTCCACCCACAGCTGGGCCCTTCTCTGCATTGGAGGCTTTCACTGATGATCACAGGGCCGAACGCCCGTTTCCTGAGGAAGACCCGGGATCTGATGGCGATGCAAGGCTGCCACCTGCTTCTCAGCTTGAAGGCCTCAAGAACTTTTTGCAACAG
Peptide sequence:
MSLVQARYESQRIQMESELAVQLEQRVTERLAEAQENSLRQAASLRDHHRKQLQELSGQHQQELAAQLAQFKVEMADREERQQQVAQDYELRLAREQARVRDLKSGNQQLEEQRAELVERLQAMLQAHWEEANQLLSTTLLPPNPQAPLAEPSSPGPLEPEKGERRTWAMPPMAVALKPVLQQSREVKGDVPGAPSVLCSTSPDLSLLLGPPFQNQNSFQPLEPKPDVTPPTAGPFSALEAFTDDHRAERPFPEEDPGSDGDARLPPASQLEGLKNFLQQEEERQALTLRLEVEQQQCRTLQEERDEARAGQLSEHRKLEALQVALQEERQAWIKQEHQLKERLQALQEEGQAQLEREKGNSQREAQAAWETQQQFALLQTEVRRLEGDLDTVRRERDALQLEMSLVQARYESQRIQMESELAVQLEQRVTERLAEAQENSLRQAASLRDHHRKQLQELSGQHQQELAAQLAQFKVEMADREERQQQVAQDYELRLAREQARVRDLKSGNQQLEEQRAELVERLQAMLQAHWEEANQLLSTTLLPPNPQAPLAEPSSPGPLEPEKGERRTWAMPPMAVALKPVLQQSREVKGDVPGAPSVLCSTSPDLSLLLGPPFQNQNSFQPLEPKPDVTPPTAGPFSALEAFTDDHRAERPFPEEDPGSDGDARLPPASQLEGLKNFLQQ
IRESfinder result
IRESfinder score
0.26044979
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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