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mmu_circRobo2_2034
Basic information of circular RNA
PanCircBase ID:
mmu_circRobo2_2034
mm39_Chr. Position ID:
chr16|73712985|73764777|-
Gene name:
Robo2
Transcript:
ENSMUST00000117785.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
12
Exon/intron indexes:
24,23,22,21,20,19,18,17,16,15,14,13
Exon/intron offsets:
0,4436,11926,16948,17489,22633,24158,32105,40390,42206,45581,51670
Genomic length:
51792
Exon/intron sizes in nt:
20,62,61,15,41,26,28,20,00,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr16:73701444-73712985|chr16:73764777-73767941
Splice length:
2034
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
ATATCAGCCCCCCAGCACAAGGAGTGGACCACAGACAGGTGCAGAAGGAATTAGGTGATGTCGTTGTTCGTCTCCATAATCCAGTTGTCCTGACACCTACAACTGTTCAAGTCACATGGACGGTGGACCGACAACCCCAGTTTATTCAGGGCTACAGAGTGATGTACCGTCAGACTTCGGGACTACAAGCCTCAACTGTGTGGCAGAATCTAGACGCCAAAGTCCCGACTGAGAGGAGTGCTGTCCTTGTGAATTTGAAAAAGGGGGTGACTTATGAAATTAAAGTCCGGCCGTATTTTAACGAGTTCCAAGGAATGGACAGTGAATCGAAAACAGTCCGAACCACTGAGGAAGCCCCAAGTGCCCCTCCCCAGTCTGTCACTGTGCTGACAGTTGGAAGTCACAACAGCACAAGCATCAGTGTTTCCTGGGATCCTCCACCAGCCGACCACCAGAATGGAATTATTCAGGAATATAAGATCTGGTGTCTGGGAAACGAAACGCGATTCCATATCAATAAAACGGTGGATGCAGCCATTCGCTCTGTAGTAATAGGTGGCTTGTTCCCTGGAATTCAGTACCGGGTAGAAGTGGCAGCTAGCACAAGTGCAGGGGTTGGAGTAAAAAGTGAACCACAGCCGATAATAATTGGGGGACGTAACGAAGTTGTCATTACTGAAAACAATAACAGCATCACTGAGCAAATCACGGATGTCGTGAAGCAACCGGCATTTATAGCTGGCATTGGTGGTGCCTGCTGGGTAATTCTGATGGGTTTTAGCATCTGGTTGTACTGGAGAAGAAAGAAGAGAAAGGGACTCAGCAATTATGCTGTAACATTTCAAAGAGGAGATGGAGGACTAATGAGCAATGGGAGCCGTCCAGGTCTTCTAAATGCTGGCGATCCCAATTACCCATGGCTTGCTGATTCTTGGCCAGCCACGAGTTTGCCAGTGAACAATAGCAATAGTGGCCCAAATGAAATTGGAAATTTTGGGCGTGGAGATGTGCTGCCTCCGGTGCCAGGCCAAGGGGATAAAACAGCGACCATGCTCTCGGATGGAGCCATTTATAGCAGCATTGACTTCACTACCAAAACCACTTACAACAGTTCCAGCCAAATAACACAGGCCACCCCATATGCCACTACACAAATCCTGCATTCAAACAGCATCCACGAACTGGCAGTTGATCTTCCTGATCCACAGTGGAAAAGCTCAGTTCAACAGAAGACAGACCTCATGGGATTTGGTTATTCGCTACCTGATCAGAACAAGGGGAACAACGCCTTACTTTACATCCCTGACTACCGATTGGCTGAGGGATTGTCTAATAGAATGCCACACAACCAGTCACAGGATTTCAGCACCACCAGCTCTCACAACAGCTCAGAAAGGAGTGGCAGTCTCTCAGGTGGGAAAGGTGGAAAAAAGAAGAAAACTAAAAATTCTTCGAAAGCGCAGAAAAACAACGGATCCACTTGGGCTAATGTCCCTCTACCTCCTCCTCCCGTCCAGCCCCTTCCTGGTACAGAGCTGGGCCACTATGCTGCGGAACAAGAAAATGGCTATGACAGTGACAGCTGGTGCCCACCATTACCGGTGCAAACATACTTGCATCAGGGTATGGAAGATGAGCTGGAAGAAGACGAAGATCGGGTCCCAACACCTCCTGTTCGCGGCGTGGCCTCTTCACCAGCTATCTCTTTTGGACAGCAGTCCACTGCCACTCTTACTCCATCCCCACGGGAAGAGATGCAACCCATGCTGCAAGCTCACTTGGATGAGTTGACAAGGGCCTATCAGTTTGATATAGCAAAACAAACATGGCACATTCAAAGCAATACCCCACCTCCACAACCCCCAGCTCCGCCATTAGGTTACGTGTCCGGAGCCTTGATTTCTGATTTGGAGACAGATGTTCCAGATGAGGATGCTGATGATGAAGAGGAACCATTAGAAATTCCCAGGCCCCTCAGAGCACTAGACCAGACACCTGGATCCAGTATGGACAATCTAGACAGCTCTGTCACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCCCTCAGAGCACTAGACCA
60.32
TGGAGACGAACAACGACATCA
59.66
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAAATTCCCAGGCCCCTCAG
60.4
TGGAGACGAACAACGACATCA
59.66
152
PCR template sequence:
GCTGATGATGAAGAGGAACCATTAGAAATTCCCAGGCCCCTCAGAGCACTAGACCAGACACCTGGATCCAGTATGGACAATCTAGACAGCTCTGTCACAGATATCAGCCCCCCAGCACAAGGAGTGGACCACAGACAGGTGCAGAAGGAATTAGGTGATGTCGTTGTTCGTCTCCATAATCCAGTTGTCCTGACACCTAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
26
Interacting miRNAs (#binding sites)
mmu-miR-138-5p(2), mmu-miR-137-3p(1), 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-211-5p(1), mmu-miR-204-5p(1), mmu-miR-203-3p(1), mmu-miR-214-3p(1), mmu-miR-128-3p(1), mmu-let-7d-5p(1), mmu-miR-24-3p(1), mmu-miR-382-3p(1), mmu-miR-22-3p(1), mmu-miR-34b-5p(1), mmu-miR-107-3p(1), mmu-miR-5101(1), mmu-miR-335-3p(1), mmu-miR-3470b(1), mmu-miR-1199-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGCTCTGTCACAGATATCAGCCCCCC
siRNA sets
TGATATCTGTGACAGAGCT, CTGATATCTGTGACAGAGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCROBO2_2034_ORF_1
0.9316
0.175865205
1
3906
ORF sequence:
ATGTACCGTCAGACTTCGGGACTACAAGCCTCAACTGTGTGGCAGAATCTAGACGCCAAAGTCCCGACTGAGAGGAGTGCTGTCCTTGTGAATTTGAAAAAGGGGGTGACTTATGAAATTAAAGTCCGGCCGTATTTTAACGAGTTCCAAGGAATGGACAGTGAATCGAAAACAGTCCGAACCACTGAGGAAGCCCCAAGTGCCCCTCCCCAGTCTGTCACTGTGCTGACAGTTGGAAGTCACAACAGCACAAGCATCAGTGTTTCCTGGGATCCTCCACCAGCCGACCACCAGAATGGAATTATTCAGGAATATAAGATCTGGTGTCTGGGAAACGAAACGCGATTCCATATCAATAAAACGGTGGATGCAGCCATTCGCTCTGTAGTAATAGGTGGCTTGTTCCCTGGAATTCAGTACCGGGTAGAAGTGGCAGCTAGCACAAGTGCAGGGGTTGGAGTAAAAAGTGAACCACAGCCGATAATAATTGGGGGACGTAACGAAGTTGTCATTACTGAAAACAATAACAGCATCACTGAGCAAATCACGGATGTCGTGAAGCAACCGGCATTTATAGCTGGCATTGGTGGTGCCTGCTGGGTAATTCTGATGGGTTTTAGCATCTGGTTGTACTGGAGAAGAAAGAAGAGAAAGGGACTCAGCAATTATGCTGTAACATTTCAAAGAGGAGATGGAGGACTAATGAGCAATGGGAGCCGTCCAGGTCTTCTAAATGCTGGCGATCCCAATTACCCATGGCTTGCTGATTCTTGGCCAGCCACGAGTTTGCCAGTGAACAATAGCAATAGTGGCCCAAATGAAATTGGAAATTTTGGGCGTGGAGATGTGCTGCCTCCGGTGCCAGGCCAAGGGGATAAAACAGCGACCATGCTCTCGGATGGAGCCATTTATAGCAGCATTGACTTCACTACCAAAACCACTTACAACAGTTCCAGCCAAATAACACAGGCCACCCCATATGCCACTACACAAATCCTGCATTCAAACAGCATCCACGAACTGGCAGTTGATCTTCCTGATCCACAGTGGAAAAGCTCAGTTCAACAGAAGACAGACCTCATGGGATTTGGTTATTCGCTACCTGATCAGAACAAGGGGAACAACGCCTTACTTTACATCCCTGACTACCGATTGGCTGAGGGATTGTCTAATAGAATGCCACACAACCAGTCACAGGATTTCAGCACCACCAGCTCTCACAACAGCTCAGAAAGGAGTGGCAGTCTCTCAGGTGGGAAAGGTGGAAAAAAGAAGAAAACTAAAAATTCTTCGAAAGCGCAGAAAAACAACGGATCCACTTGGGCTAATGTCCCTCTACCTCCTCCTCCCGTCCAGCCCCTTCCTGGTACAGAGCTGGGCCACTATGCTGCGGAACAAGAAAATGGCTATGACAGTGACAGCTGGTGCCCACCATTACCGGTGCAAACATACTTGCATCAGGGTATGGAAGATGAGCTGGAAGAAGACGAAGATCGGGTCCCAACACCTCCTGTTCGCGGCGTGGCCTCTTCACCAGCTATCTCTTTTGGACAGCAGTCCACTGCCACTCTTACTCCATCCCCACGGGAAGAGATGCAACCCATGCTGCAAGCTCACTTGGATGAGTTGACAAGGGCCTATCAGTTTGATATAGCAAAACAAACATGGCACATTCAAAGCAATACCCCACCTCCACAACCCCCAGCTCCGCCATTAGGTTACGTGTCCGGAGCCTTGATTTCTGATTTGGAGACAGATGTTCCAGATGAGGATGCTGATGATGAAGAGGAACCATTAGAAATTCCCAGGCCCCTCAGAGCACTAGACCAGACACCTGGATCCAGTATGGACAATCTAGACAGCTCTGTCACAGATATCAGCCCCCCAGCACAAGGAGTGGACCACAGACAGGTGCAGAAGGAATTAGGTGATGTCGTTGTTCGTCTCCATAATCCAGTTGTCCTGACACCTACAACTGTTCAAGTCACATGGACGGTGGACCGACAACCCCAGTTTATTCAGGGCTACAGAGTGATGTACCGTCAGACTTCGGGACTACAAGCCTCAACTGTGTGGCAGAATCTAGACGCCAAAGTCCCGACTGAGAGGAGTGCTGTCCTTGTGAATTTGAAAAAGGGGGTGACTTATGAAATTAAAGTCCGGCCGTATTTTAACGAGTTCCAAGGAATGGACAGTGAATCGAAAACAGTCCGAACCACTGAGGAAGCCCCAAGTGCCCCTCCCCAGTCTGTCACTGTGCTGACAGTTGGAAGTCACAACAGCACAAGCATCAGTGTTTCCTGGGATCCTCCACCAGCCGACCACCAGAATGGAATTATTCAGGAATATAAGATCTGGTGTCTGGGAAACGAAACGCGATTCCATATCAATAAAACGGTGGATGCAGCCATTCGCTCTGTAGTAATAGGTGGCTTGTTCCCTGGAATTCAGTACCGGGTAGAAGTGGCAGCTAGCACAAGTGCAGGGGTTGGAGTAAAAAGTGAACCACAGCCGATAATAATTGGGGGACGTAACGAAGTTGTCATTACTGAAAACAATAACAGCATCACTGAGCAAATCACGGATGTCGTGAAGCAACCGGCATTTATAGCTGGCATTGGTGGTGCCTGCTGGGTAATTCTGATGGGTTTTAGCATCTGGTTGTACTGGAGAAGAAAGAAGAGAAAGGGACTCAGCAATTATGCTGTAACATTTCAAAGAGGAGATGGAGGACTAATGAGCAATGGGAGCCGTCCAGGTCTTCTAAATGCTGGCGATCCCAATTACCCATGGCTTGCTGATTCTTGGCCAGCCACGAGTTTGCCAGTGAACAATAGCAATAGTGGCCCAAATGAAATTGGAAATTTTGGGCGTGGAGATGTGCTGCCTCCGGTGCCAGGCCAAGGGGATAAAACAGCGACCATGCTCTCGGATGGAGCCATTTATAGCAGCATTGACTTCACTACCAAAACCACTTACAACAGTTCCAGCCAAATAACACAGGCCACCCCATATGCCACTACACAAATCCTGCATTCAAACAGCATCCACGAACTGGCAGTTGATCTTCCTGATCCACAGTGGAAAAGCTCAGTTCAACAGAAGACAGACCTCATGGGATTTGGTTATTCGCTACCTGATCAGAACAAGGGGAACAACGCCTTACTTTACATCCCTGACTACCGATTGGCTGAGGGATTGTCTAATAGAATGCCACACAACCAGTCACAGGATTTCAGCACCACCAGCTCTCACAACAGCTCAGAAAGGAGTGGCAGTCTCTCAGGTGGGAAAGGTGGAAAAAAGAAGAAAACTAAAAATTCTTCGAAAGCGCAGAAAAACAACGGATCCACTTGGGCTAATGTCCCTCTACCTCCTCCTCCCGTCCAGCCCCTTCCTGGTACAGAGCTGGGCCACTATGCTGCGGAACAAGAAAATGGCTATGACAGTGACAGCTGGTGCCCACCATTACCGGTGCAAACATACTTGCATCAGGGTATGGAAGATGAGCTGGAAGAAGACGAAGATCGGGTCCCAACACCTCCTGTTCGCGGCGTGGCCTCTTCACCAGCTATCTCTTTTGGACAGCAGTCCACTGCCACTCTTACTCCATCCCCACGGGAAGAGATGCAACCCATGCTGCAAGCTCACTTGGATGAGTTGACAAGGGCCTATCAGTTTGATATAGCAAAACAAACATGGCACATTCAAAGCAATACCCCACCTCCACAACCCCCAGCTCCGCCATTAGGTTACGTGTCCGGAGCCTTGATTTCTGATTTGGAGACAGATGTTCCAGATGAGGATGCTGATGATGAAGAGGAACCATTAGAAATTCCCAGGCCCCTCAGAGCACTAGACCAGACACCTGGATCCAGTATGGACAATCTAGACAGCTCTGTCACA
Peptide sequence:
MYRQTSGLQASTVWQNLDAKVPTERSAVLVNLKKGVTYEIKVRPYFNEFQGMDSESKTVRTTEEAPSAPPQSVTVLTVGSHNSTSISVSWDPPPADHQNGIIQEYKIWCLGNETRFHINKTVDAAIRSVVIGGLFPGIQYRVEVAASTSAGVGVKSEPQPIIIGGRNEVVITENNNSITEQITDVVKQPAFIAGIGGACWVILMGFSIWLYWRRKKRKGLSNYAVTFQRGDGGLMSNGSRPGLLNAGDPNYPWLADSWPATSLPVNNSNSGPNEIGNFGRGDVLPPVPGQGDKTATMLSDGAIYSSIDFTTKTTYNSSSQITQATPYATTQILHSNSIHELAVDLPDPQWKSSVQQKTDLMGFGYSLPDQNKGNNALLYIPDYRLAEGLSNRMPHNQSQDFSTTSSHNSSERSGSLSGGKGGKKKKTKNSSKAQKNNGSTWANVPLPPPPVQPLPGTELGHYAAEQENGYDSDSWCPPLPVQTYLHQGMEDELEEDEDRVPTPPVRGVASSPAISFGQQSTATLTPSPREEMQPMLQAHLDELTRAYQFDIAKQTWHIQSNTPPPQPPAPPLGYVSGALISDLETDVPDEDADDEEEPLEIPRPLRALDQTPGSSMDNLDSSVTDISPPAQGVDHRQVQKELGDVVVRLHNPVVLTPTTVQVTWTVDRQPQFIQGYRVMYRQTSGLQASTVWQNLDAKVPTERSAVLVNLKKGVTYEIKVRPYFNEFQGMDSESKTVRTTEEAPSAPPQSVTVLTVGSHNSTSISVSWDPPPADHQNGIIQEYKIWCLGNETRFHINKTVDAAIRSVVIGGLFPGIQYRVEVAASTSAGVGVKSEPQPIIIGGRNEVVITENNNSITEQITDVVKQPAFIAGIGGACWVILMGFSIWLYWRRKKRKGLSNYAVTFQRGDGGLMSNGSRPGLLNAGDPNYPWLADSWPATSLPVNNSNSGPNEIGNFGRGDVLPPVPGQGDKTATMLSDGAIYSSIDFTTKTTYNSSSQITQATPYATTQILHSNSIHELAVDLPDPQWKSSVQQKTDLMGFGYSLPDQNKGNNALLYIPDYRLAEGLSNRMPHNQSQDFSTTSSHNSSERSGSLSGGKGGKKKKTKNSSKAQKNNGSTWANVPLPPPPVQPLPGTELGHYAAEQENGYDSDSWCPPLPVQTYLHQGMEDELEEDEDRVPTPPVRGVASSPAISFGQQSTATLTPSPREEMQPMLQAHLDELTRAYQFDIAKQTWHIQSNTPPPQPPAPPLGYVSGALISDLETDVPDEDADDEEEPLEIPRPLRALDQTPGSSMDNLDSSVT
IRESfinder result
IRESfinder score
0.477544327
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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