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mmu_circRobo2_994
Basic information of circular RNA
PanCircBase ID:
mmu_circRobo2_994
mm39_Chr. Position ID:
chr16|73717421|73737186|-
Gene name:
Robo2
Transcript:
ENSMUST00000117785.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
23,22,21,20,19,18
Exon/intron offsets:
0,7490,12512,13053,18197,19722
Genomic length:
19765
Exon/intron sizes in nt:
261,154,126,282,128,43
Flanking exon/introns:
chr16:73713191-73717421|chr16:73737186-73745090
Splice length:
994
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
TAACATTTCAAAGAGGAGATGGAGGACTAATGAGCAATGGGAGCCGTCCAGGTCTTCTAAATGCTGGCGATCCCAATTACCCATGGCTTGCTGATTCTTGGCCAGCCACGAGTTTGCCAGTGAACAATAGCAATAGTGGCCCAAATGAAATTGGAAATTTTGGGCGTGGAGATGTGCTGCCTCCGGTGCCAGGCCAAGGGGATAAAACAGCGACCATGCTCTCGGATGGAGCCATTTATAGCAGCATTGACTTCACTACCAAAACCACTTACAACAGTTCCAGCCAAATAACACAGGCCACCCCATATGCCACTACACAAATCCTGCATTCAAACAGCATCCACGAACTGGCAGTTGATCTTCCTGATCCACAGTGGAAAAGCTCAGTTCAACAGAAGACAGACCTCATGGGATTTGGTTATTCGCTACCTGATCAGAACAAGGGGAACAACGCCTTACTTTACATCCCTGACTACCGATTGGCTGAGGGATTGTCTAATAGAATGCCACACAACCAGTCACAGGATTTCAGCACCACCAGCTCTCACAACAGCTCAGAAAGGAGTGGCAGTCTCTCAGGTGGGAAAGGTGGAAAAAAGAAGAAAACTAAAAATTCTTCGAAAGCGCAGAAAAACAACGGATCCACTTGGGCTAATGTCCCTCTACCTCCTCCTCCCGTCCAGCCCCTTCCTGGTACAGAGCTGGGCCACTATGCTGCGGAACAAGAAAATGGCTATGACAGTGACAGCTGGTGCCCACCATTACCGGTGCAAACATACTTGCATCAGGGTATGGAAGATGAGCTGGAAGAAGACGAAGATCGGGTCCCAACACCTCCTGTTCGCGGCGTGGCCTCTTCACCAGCTATCTCTTTTGGACAGCAGTCCACTGCCACTCTTACTCCATCCCCACGGGAAGAGATGCAACCCATGCTGCAAGCTCACTTGGATGAGTTGACAAGGGCCTATCAGTTTGATATAGCAAAACAAACATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGGGAAGAGATGCAACCCAT
60.11
TGGGTAATTGGGATCGCCAG
59.82
166
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGATGAGTTGACAAGGGCC
59.96
AGAATCAGCAAGCCATGGGT
59.67
147
PCR template sequence:
CTCTTACTCCATCCCCACGGGAAGAGATGCAACCCATGCTGCAAGCTCACTTGGATGAGTTGACAAGGGCCTATCAGTTTGATATAGCAAAACAAACATGTAACATTTCAAAGAGGAGATGGAGGACTAATGAGCAATGGGAGCCGTCCAGGTCTTCTAAATGCTGGCGATCCCAATTACCCATGGCTTGCTGATTCTTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
16
Interacting miRNAs (#binding sites)
mmu-miR-140-5p(1), mmu-miR-134-5p(1), mmu-let-7a-5p(1), mmu-miR-103-3p(1), mmu-let-7e-5p(1), mmu-let-7b-5p(1), mmu-miR-34c-5p(1), mmu-miR-34a-5p(1), mmu-let-7c-5p(1), mmu-miR-203-3p(1), mmu-miR-138-5p(1), mmu-let-7d-5p(1), mmu-miR-24-3p(1), mmu-miR-34b-5p(1), mmu-miR-107-3p(1), mmu-miR-5101(1)
siRNAs for circular RNA silencing
Junction sequence
CAAAACAAACATGTAACATTTCAAAG
siRNA sets
TTGAAATGTTACATGTTTG, AAATGTTACATGTTTGTTT, AATGTTACATGTTTGTTTT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCROBO2_994_ORF_1
0.7862
0.149541386
0.98817872
1059
ORF sequence:
ATGAGCAATGGGAGCCGTCCAGGTCTTCTAAATGCTGGCGATCCCAATTACCCATGGCTTGCTGATTCTTGGCCAGCCACGAGTTTGCCAGTGAACAATAGCAATAGTGGCCCAAATGAAATTGGAAATTTTGGGCGTGGAGATGTGCTGCCTCCGGTGCCAGGCCAAGGGGATAAAACAGCGACCATGCTCTCGGATGGAGCCATTTATAGCAGCATTGACTTCACTACCAAAACCACTTACAACAGTTCCAGCCAAATAACACAGGCCACCCCATATGCCACTACACAAATCCTGCATTCAAACAGCATCCACGAACTGGCAGTTGATCTTCCTGATCCACAGTGGAAAAGCTCAGTTCAACAGAAGACAGACCTCATGGGATTTGGTTATTCGCTACCTGATCAGAACAAGGGGAACAACGCCTTACTTTACATCCCTGACTACCGATTGGCTGAGGGATTGTCTAATAGAATGCCACACAACCAGTCACAGGATTTCAGCACCACCAGCTCTCACAACAGCTCAGAAAGGAGTGGCAGTCTCTCAGGTGGGAAAGGTGGAAAAAAGAAGAAAACTAAAAATTCTTCGAAAGCGCAGAAAAACAACGGATCCACTTGGGCTAATGTCCCTCTACCTCCTCCTCCCGTCCAGCCCCTTCCTGGTACAGAGCTGGGCCACTATGCTGCGGAACAAGAAAATGGCTATGACAGTGACAGCTGGTGCCCACCATTACCGGTGCAAACATACTTGCATCAGGGTATGGAAGATGAGCTGGAAGAAGACGAAGATCGGGTCCCAACACCTCCTGTTCGCGGCGTGGCCTCTTCACCAGCTATCTCTTTTGGACAGCAGTCCACTGCCACTCTTACTCCATCCCCACGGGAAGAGATGCAACCCATGCTGCAAGCTCACTTGGATGAGTTGACAAGGGCCTATCAGTTTGATATAGCAAAACAAACATGTAACATTTCAAAGAGGAGATGGAGGACTAATGAGCAATGGGAGCCGTCCAGGTCTTCTAAATGCTGGCGATCCCAATTACCCATGGCTTGCTGA
Peptide sequence:
MSNGSRPGLLNAGDPNYPWLADSWPATSLPVNNSNSGPNEIGNFGRGDVLPPVPGQGDKTATMLSDGAIYSSIDFTTKTTYNSSSQITQATPYATTQILHSNSIHELAVDLPDPQWKSSVQQKTDLMGFGYSLPDQNKGNNALLYIPDYRLAEGLSNRMPHNQSQDFSTTSSHNSSERSGSLSGGKGGKKKKTKNSSKAQKNNGSTWANVPLPPPPVQPLPGTELGHYAAEQENGYDSDSWCPPLPVQTYLHQGMEDELEEDEDRVPTPPVRGVASSPAISFGQQSTATLTPSPREEMQPMLQAHLDELTRAYQFDIAKQTCNISKRRWRTNEQWEPSRSSKCWRSQLPMAC
IRESfinder result
IRESfinder score
0.449278313
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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