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mmu_circRalgapa2_1767
Basic information of circular RNA
PanCircBase ID:
mmu_circRalgapa2_1767
mm39_Chr. Position ID:
chr2|146176411|146200005|-
Gene name:
Ralgapa2
Transcript:
ENSMUST00000109986.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
35,34,33,32,31,30,29,28,27,26
Exon/intron offsets:
0,5887,7486,10894,12217,12624,13956,18679,22596,23465
Genomic length:
23594
Exon/intron sizes in nt:
12,47,27,72,18,41,38,60,00,00,00,00,000
Flanking exon/introns:
chr2:146175491-146176411|chr2:146200005-146203310
Splice length:
1767
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GCACCCCGTTCAGAAGCTCTCACTCTCCTTGGTTCCCTTGTCTGCTTCCCAAATACCTACCAGGAGATCCCTCTGCTGCAGTCAGTGCCAGAAGTGAGTGATGTTGTCACGGGAGCGGAAGACGTCAAGCATTACCTCATAAATATTTTACTGAAGAATGCTACCGAGGAACCAAATGAATGTGCAAGATGCATCGCCATTTGCTCCCTCGGGGTCTGGATCTGTGAAGAGCTTGCACAGAGTGCCAGCCATCCTCAGGTGAAGGATGCCATCAATGTGATAGGTGTAACTTTGAAGTTTCCTAACAAGATCGTGGCTCAGGTAGCCTGTGATGTTCTTCAGTTGTTGGTTTCCTACTGGGAAAAGCTGCAGATGTTTGAAACTGCTCTACCCCGCAAAATGGCAGAAATTCTTGTGGCCACAATTGCGTTCCTTTTACCAAGTGCAGAGTACTCGTCAGTGGAAACAGATAAAAAGTTTATTGTGTCCTTGCTCCTTTGTCTCTTGGACTGGTGCATGGCGCTGCCCGTGAGTGCCCTCCTCCACCCTGTGTCCACAGCAGTTCTAGAGGAGCTGCACCCATCCCGGGCCCCCTTGCTGGATTATATCTACAGGGTTCTGCACTGCTGTGTCTGTGGCTCCAGCACATACACACAGCAAAGTCACTATACTCTGACCTTGGCTGACCTGTCATCCACGGATTATGACCCCTTCCTACCTCTGGCAAACGTGAGGAACTCCGAGCCAATCCAGTATCATTCATCAGCAGACCTGGGGAACCTGCTGACCGTGGAAGAGGAAAAGAAGAGAAGAAGTGTGGAATTGATCCCCCTCACTGCACGAATGGTCATGGCCCACCTAGTGAACCACCTAGGCCACTATCCACTGAGTGGGGGTCCTGCTGTGCTGCACAGCCTGGTCAGTGAGAACCATGACAATGCCCATGTGGAAGGAACTGAGCTGTCCTCGGAGGTGTTCAGGAGCCCAAACCTGCAGCTCTTCGTATTTAATGATAGCACCCTCATCTCCTATCTTCAGACACCAGCAGAAGGACCAGCTGGAGGGACTTCAGGGGGTTCCCTCTCAGATGTGAGAGTCATTGTGAGGGATATCTCAGGGAAGTACTCTTGGGATGGCAAGGTTTTATATGGACCTCTGGAAGGCCGTTTGGCACCCAATGGAAGGAACCCCTCATTTCAGATTTCTGGCTGGCATCATCACACATGTGGACCTCAGAAAGATTTGTTTAACGGTGAGGAGGGAGATGATGTGCTTGACAAGTTACTTGAAAACATTGGCCATACAAGCCCCGAATGCCTTTTACCATCACAACTAAATCTAAATGAGCCTTCCCCAACCCCATGTGCAATGAACTGGGACCAAGAGAAGGCAATCATGGAGGTCATCCTGCGCCAGAGCGCACAGGAAGATGAGTATGTGCAGAGGTGTAACTCGGATTCTTCAGTAACGGTCACCAGCCAAGGGCAGCCCTCACCCGTGGAGCCCCGGGGACCCTTTTATTTCTGCAGGTTGTTGCTTGATGACTTGGGAATGAATTCCTGGGACAGAAGGAAGAATTTTCATTTGTTGAAGAAAAATTCAAAATTATTGAGAGAGCTAAAGAATCTGGACTCGCGCCAGTGCCGCGAGACCCATAAGATTGCAGTGTTTTACATTGCTGAAGGGCAAGAAGACAAGTGTTCCATTCTAGCCAATGAAAGAGGAAGCCAAGCATATGAAGACTTTGTTGCTGGTCTTGGATGGGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGCTGAAGGGCAAGAAGACA
59.53
GACTGCAGCAGAGGGATCTC
59.9
174
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGCTGAAGGGCAAGAAGACA
59.53
TGGGAAGCAGACAAGGGAAC
59.89
142
PCR template sequence:
GTTTTACATTGCTGAAGGGCAAGAAGACAAGTGTTCCATTCTAGCCAATGAAAGAGGAAGCCAAGCATATGAAGACTTTGTTGCTGGTCTTGGATGGGAGGCACCCCGTTCAGAAGCTCTCACTCTCCTTGGTTCCCTTGTCTGCTTCCCAAATACCTACCAGGAGATCCCTCTGCTGCAGTCAGTGCCAGAAGTGAGTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
27
Interacting miRNAs (#binding sites)
mmu-miR-138-5p(2), mmu-let-7a-5p(1), mmu-miR-32-5p(1), mmu-let-7e-5p(1), mmu-let-7b-5p(1), mmu-let-7c-5p(1), mmu-miR-125b-5p(1), mmu-miR-10b-5p(1), mmu-miR-10a-5p(1), mmu-miR-181b-5p(1), mmu-let-7d-5p(1), mmu-miR-351-5p(1), mmu-miR-26b-5p(1), mmu-miR-125a-5p(1), mmu-miR-501-3p(1), mmu-miR-297a-5p(1), mmu-miR-342-5p(1), mmu-miR-98-5p(1), mmu-miR-802-5p(1), mmu-miR-3065-5p(1), mmu-miR-3470b(1), mmu-miR-670-5p(1), mmu-miR-1904(1), mmu-miR-544-5p(1), mmu-miR-296-3p(1), mmu-miR-181d-5p(1), mmu-miR-7a-1-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TCTTGGATGGGAGGCACCCCGTTCAG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRALGAPA2_1767_ORF_1
0.9888
0.178993349
0.999999998
3162
ORF sequence:
ATGTTTGAAACTGCTCTACCCCGCAAAATGGCAGAAATTCTTGTGGCCACAATTGCGTTCCTTTTACCAAGTGCAGAGTACTCGTCAGTGGAAACAGATAAAAAGTTTATTGTGTCCTTGCTCCTTTGTCTCTTGGACTGGTGCATGGCGCTGCCCGTGAGTGCCCTCCTCCACCCTGTGTCCACAGCAGTTCTAGAGGAGCTGCACCCATCCCGGGCCCCCTTGCTGGATTATATCTACAGGGTTCTGCACTGCTGTGTCTGTGGCTCCAGCACATACACACAGCAAAGTCACTATACTCTGACCTTGGCTGACCTGTCATCCACGGATTATGACCCCTTCCTACCTCTGGCAAACGTGAGGAACTCCGAGCCAATCCAGTATCATTCATCAGCAGACCTGGGGAACCTGCTGACCGTGGAAGAGGAAAAGAAGAGAAGAAGTGTGGAATTGATCCCCCTCACTGCACGAATGGTCATGGCCCACCTAGTGAACCACCTAGGCCACTATCCACTGAGTGGGGGTCCTGCTGTGCTGCACAGCCTGGTCAGTGAGAACCATGACAATGCCCATGTGGAAGGAACTGAGCTGTCCTCGGAGGTGTTCAGGAGCCCAAACCTGCAGCTCTTCGTATTTAATGATAGCACCCTCATCTCCTATCTTCAGACACCAGCAGAAGGACCAGCTGGAGGGACTTCAGGGGGTTCCCTCTCAGATGTGAGAGTCATTGTGAGGGATATCTCAGGGAAGTACTCTTGGGATGGCAAGGTTTTATATGGACCTCTGGAAGGCCGTTTGGCACCCAATGGAAGGAACCCCTCATTTCAGATTTCTGGCTGGCATCATCACACATGTGGACCTCAGAAAGATTTGTTTAACGGTGAGGAGGGAGATGATGTGCTTGACAAGTTACTTGAAAACATTGGCCATACAAGCCCCGAATGCCTTTTACCATCACAACTAAATCTAAATGAGCCTTCCCCAACCCCATGTGCAATGAACTGGGACCAAGAGAAGGCAATCATGGAGGTCATCCTGCGCCAGAGCGCACAGGAAGATGAGTATGTGCAGAGGTGTAACTCGGATTCTTCAGTAACGGTCACCAGCCAAGGGCAGCCCTCACCCGTGGAGCCCCGGGGACCCTTTTATTTCTGCAGGTTGTTGCTTGATGACTTGGGAATGAATTCCTGGGACAGAAGGAAGAATTTTCATTTGTTGAAGAAAAATTCAAAATTATTGAGAGAGCTAAAGAATCTGGACTCGCGCCAGTGCCGCGAGACCCATAAGATTGCAGTGTTTTACATTGCTGAAGGGCAAGAAGACAAGTGTTCCATTCTAGCCAATGAAAGAGGAAGCCAAGCATATGAAGACTTTGTTGCTGGTCTTGGATGGGAGGCACCCCGTTCAGAAGCTCTCACTCTCCTTGGTTCCCTTGTCTGCTTCCCAAATACCTACCAGGAGATCCCTCTGCTGCAGTCAGTGCCAGAAGTGAGTGATGTTGTCACGGGAGCGGAAGACGTCAAGCATTACCTCATAAATATTTTACTGAAGAATGCTACCGAGGAACCAAATGAATGTGCAAGATGCATCGCCATTTGCTCCCTCGGGGTCTGGATCTGTGAAGAGCTTGCACAGAGTGCCAGCCATCCTCAGGTGAAGGATGCCATCAATGTGATAGGTGTAACTTTGAAGTTTCCTAACAAGATCGTGGCTCAGGTAGCCTGTGATGTTCTTCAGTTGTTGGTTTCCTACTGGGAAAAGCTGCAGATGTTTGAAACTGCTCTACCCCGCAAAATGGCAGAAATTCTTGTGGCCACAATTGCGTTCCTTTTACCAAGTGCAGAGTACTCGTCAGTGGAAACAGATAAAAAGTTTATTGTGTCCTTGCTCCTTTGTCTCTTGGACTGGTGCATGGCGCTGCCCGTGAGTGCCCTCCTCCACCCTGTGTCCACAGCAGTTCTAGAGGAGCTGCACCCATCCCGGGCCCCCTTGCTGGATTATATCTACAGGGTTCTGCACTGCTGTGTCTGTGGCTCCAGCACATACACACAGCAAAGTCACTATACTCTGACCTTGGCTGACCTGTCATCCACGGATTATGACCCCTTCCTACCTCTGGCAAACGTGAGGAACTCCGAGCCAATCCAGTATCATTCATCAGCAGACCTGGGGAACCTGCTGACCGTGGAAGAGGAAAAGAAGAGAAGAAGTGTGGAATTGATCCCCCTCACTGCACGAATGGTCATGGCCCACCTAGTGAACCACCTAGGCCACTATCCACTGAGTGGGGGTCCTGCTGTGCTGCACAGCCTGGTCAGTGAGAACCATGACAATGCCCATGTGGAAGGAACTGAGCTGTCCTCGGAGGTGTTCAGGAGCCCAAACCTGCAGCTCTTCGTATTTAATGATAGCACCCTCATCTCCTATCTTCAGACACCAGCAGAAGGACCAGCTGGAGGGACTTCAGGGGGTTCCCTCTCAGATGTGAGAGTCATTGTGAGGGATATCTCAGGGAAGTACTCTTGGGATGGCAAGGTTTTATATGGACCTCTGGAAGGCCGTTTGGCACCCAATGGAAGGAACCCCTCATTTCAGATTTCTGGCTGGCATCATCACACATGTGGACCTCAGAAAGATTTGTTTAACGGTGAGGAGGGAGATGATGTGCTTGACAAGTTACTTGAAAACATTGGCCATACAAGCCCCGAATGCCTTTTACCATCACAACTAAATCTAAATGAGCCTTCCCCAACCCCATGTGCAATGAACTGGGACCAAGAGAAGGCAATCATGGAGGTCATCCTGCGCCAGAGCGCACAGGAAGATGAGTATGTGCAGAGGTGTAACTCGGATTCTTCAGTAACGGTCACCAGCCAAGGGCAGCCCTCACCCGTGGAGCCCCGGGGACCCTTTTATTTCTGCAGGTTGTTGCTTGATGACTTGGGAATGAATTCCTGGGACAGAAGGAAGAATTTTCATTTGTTGAAGAAAAATTCAAAATTATTGAGAGAGCTAAAGAATCTGGACTCGCGCCAGTGCCGCGAGACCCATAAGATTGCAGTGTTTTACATTGCTGAAGGGCAAGAAGACAAGTGTTCCATTCTAGCCAATGAAAGAGGAAGCCAAGCATATGAAGACTTTGTTGCTGGTCTTGGATGGGAG
Peptide sequence:
MFETALPRKMAEILVATIAFLLPSAEYSSVETDKKFIVSLLLCLLDWCMALPVSALLHPVSTAVLEELHPSRAPLLDYIYRVLHCCVCGSSTYTQQSHYTLTLADLSSTDYDPFLPLANVRNSEPIQYHSSADLGNLLTVEEEKKRRSVELIPLTARMVMAHLVNHLGHYPLSGGPAVLHSLVSENHDNAHVEGTELSSEVFRSPNLQLFVFNDSTLISYLQTPAEGPAGGTSGGSLSDVRVIVRDISGKYSWDGKVLYGPLEGRLAPNGRNPSFQISGWHHHTCGPQKDLFNGEEGDDVLDKLLENIGHTSPECLLPSQLNLNEPSPTPCAMNWDQEKAIMEVILRQSAQEDEYVQRCNSDSSVTVTSQGQPSPVEPRGPFYFCRLLLDDLGMNSWDRRKNFHLLKKNSKLLRELKNLDSRQCRETHKIAVFYIAEGQEDKCSILANERGSQAYEDFVAGLGWEAPRSEALTLLGSLVCFPNTYQEIPLLQSVPEVSDVVTGAEDVKHYLINILLKNATEEPNECARCIAICSLGVWICEELAQSASHPQVKDAINVIGVTLKFPNKIVAQVACDVLQLLVSYWEKLQMFETALPRKMAEILVATIAFLLPSAEYSSVETDKKFIVSLLLCLLDWCMALPVSALLHPVSTAVLEELHPSRAPLLDYIYRVLHCCVCGSSTYTQQSHYTLTLADLSSTDYDPFLPLANVRNSEPIQYHSSADLGNLLTVEEEKKRRSVELIPLTARMVMAHLVNHLGHYPLSGGPAVLHSLVSENHDNAHVEGTELSSEVFRSPNLQLFVFNDSTLISYLQTPAEGPAGGTSGGSLSDVRVIVRDISGKYSWDGKVLYGPLEGRLAPNGRNPSFQISGWHHHTCGPQKDLFNGEEGDDVLDKLLENIGHTSPECLLPSQLNLNEPSPTPCAMNWDQEKAIMEVILRQSAQEDEYVQRCNSDSSVTVTSQGQPSPVEPRGPFYFCRLLLDDLGMNSWDRRKNFHLLKKNSKLLRELKNLDSRQCRETHKIAVFYIAEGQEDKCSILANERGSQAYEDFVAGLGWE
IRESfinder result
IRESfinder score
0.575873646
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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