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mmu_circUbap2l_2942
Basic information of circular RNA
PanCircBase ID:
mmu_circUbap2l_2942
mm39_Chr. Position ID:
chr3|89915562|89955206|-
Gene name:
Ubap2l
Transcript:
ENSMUST00000198322.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
23
Exon/intron indexes:
24,23,22,21,20,19,18,17,16,15,14,13,12,11,10,9,8,7,6,5,4,3,2
Exon/intron offsets:
0,854,2177,4430,6874,7046,8443,8859,10158,10896,12641,12983,15175,16807,18337,20069,25809,26399,30114,30592,35444,36598,39514
Genomic length:
39644
Exon/intron sizes in nt:
10,62,18,82,54,89,19,60,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr3:89910619-89915562|chr3:89955206-89959696
Splice length:
2942
Other database IDs:
CIRCpedia: MMU_CIRCpedia_221979, circAtlas: mmu-Ubap2l_0020
CIRCpedia: HSA_CIRCpedia_366394
Human Ortholog IDs:
Mature spliced Sequence:
TATTCTTCCTTGTAAATACTGTTATTTGTATATACTGTAAATGATGACGTCGGTGGGCACTAACCGAGCCCGGGGAAACTGGGAACAACCTCAAAACCAAAACCAGACACAGCACAAGCAGCGGCCACAGGCCACTGCAGAGCAAATTCGACTTGCACAGATGATTTCGGACCATAATGATGCTGACTTTGAGGAGAAGGTGAAACAATTGATTGATATCACAGGCAAAAACCAGGATGAATGTGTGATTGCTTTGCATGACTGCAATGGAGATGTCAACAGAGCCATCAATGTTCTCCTGGAAGGAAATCCAGACACGCATTCCTGGGAGATGGTTGGGAAGAAGAAAGGAGTCTCAGGACAAAAGGATGGTGGACAAACTGAATCTAATGAAGAAGGAAAAGAAAATCGAGACCGGGACAGAGACTATAGTCGGCGACGTGGTGGGCCACCAAGACGGGGGAGAGGTGCCAGCCGTGGACGAGAGTTTCGGGGCCAGGAAAATGGATTGGATGGCACCAAGAGTGGAGGGCCTTCTGGAAGAGGCACAGACAGAGGCAGAAGAGGCCGTGGCCGTGGCAGAGGTAGTTCTGGTAGGCGAGGAGGAAGGTTTTCTGCTCAAGGAATGGGAACCTTTAACCCAGCTGATTATGCAGAGCCAGCCAACACTGATGATAACTATGGCAATAGCAGTGGCAATACATGGAACAACACTGGCCACTTTGAACCAGATGATGGAACAAGTGCATGGAGGACTGCAACAGAAGAGTGGGGAACTGAAGACTGGAATGAAGATCTTTCTGAGACCAAGATCTTTACCGCCTCTAATGTGTCTTCAGTGCCTCTGCCTGCGGAGAATGTGACAATCACTGCTGGTCAGAGAATTGACCTTGCTGTTCTGTTGGGGAAGACACCATCTTCAATGGAGAATGATTCATCTAATCTGGATCCATCTCAGGCTCCTTCCCTGGCTCAGCCTCTGGTGTTTAGTAATTCGAAGCAGAATGCCATATCACAGCCTGCTTCAGGGAGTACATTTTCTCACCATAGCATGGTGAGCATGTTGGGGAAAGGATTTGGTGATGTTGGGGAAGCTAAAGGTGGCAGTACAACAGGCTCCCAGTTCTTGGAGCAATTCAAGACTGCGCAGGCCCTTGCTCAACTGGCAGCTCAACATTCTCAATCTGGAAGCACTACCACCTCCTCTTGGGATATGGGCTCAACAACACAATCACCATCACTGGTGCAGTATGATCTGAAGAGTGCAAATGATTCAACAGTGCACAGTCCTTTTACAAAGCGCCAGGCATTCACCCCATCTTCAACCATGATGGAGGTATTCCTTCAGGAGAAGCCACCTGCAGTGGCTACCTCGACAGCTGCACCACCTCCCCCGTCTTCTCCTCTGCCAAGCAAATCCACCTCGGCTCCACAGATGTCTCCGGGGTCTTCAGACAACCAGTCCTCCAGCCCTCAGCCGGCTCAGCAGAAACTGAAACAGCAAAAGAAGAAAACCTCCTTGACGTCTAAGATTCCTGCTCTGGCTGTGGAGATGCCTGGCTCAGCAGATATCTCAGGGCTAAATCTACAGTTTGGGGCATTGCAGTTTGGGTCAGAGCCTGTCCTTTCTGATTATGAGTCCACCCCCACCACGAGCGCCTCCTCAAGCCAGGCTCCTAGTAGCCTGTATACCAGCACGGCCAGTGAGTCTTCATCTACAGTTTCATCTAATCAGAGTCAGGAGTCTGGTTATCAGAGTGGCCCGATTCAGTCGACAACTTATACCTCCCAAAATAATGCTCAGGGCCCTCTATATGAACAGAGATCCACACAGACGCGGCGGTATCCCAGCTCCATCTCTTCATCACCCCAAAAGGACCTGACTCAGGCTAAGAATGGTTTTAGCTCTGTGCAGGCCACGCAGTTACAGACCACGCAATCTGTTGAAGGTGCTACAGGCTCTGCAGTGAAATCTGAATCACCTTCCACTTCTAGTATACCCTCTCTCAATGAAACAGTACCTGCAGCTTCCTTACTGACGACAGCCAATCAGCATTCATCCTCCTTAAGTGGCTTGAGCCATACGGAGGAGATTCCAAATACCACCACCACACAACATAGCAGTGCATTATCTACACAGCAGAATACCCTTTCTTCATCAACATCTTCTGGGCGTACTTCAACATCCACTCTTTTGCATACAAGTGTGGAGAGTGAGGCAAATCTACATTCTTCCTCCAGCACCTTCTCTACCACATCCAGCACTGTCTCTGCACCTCCCCCAGTGGTCAGTGTCTCCTCCAGTCTGAATAGTGGCAGTAGTCTGGGCCTTAGCCTGGGCAGCAACTCTACTGTCACAGCCTCAACTCGAAGCTCAGTTGCTACAACTTCAGGAAAAGCTCCTCCCAACCTTCCTCCTGGAGTCCCGCCATTGTTGCCTAATCCATATATTATGGCTCCGGGGCTGTTACATGCCTATCCGCCACAAGTATATGGTTATGATGATTTACAGATGCTCCAGACAAGATTTCCATTGGATTACTACAGTATCCCGTTTCCCACACCCACCACTCCACTTACTGGGAGGGATGGTAGCCTGGCCAGCAACCCTTACTCTGGCGACCTCACCAAATTCGGCCGCGGGGATGCCTCCTCCCCAGCCCCAGCCACAACCTTGGCCCAACCCCAACAGAACCAGACGCAGACTCACCACACCACGCAGCAGACATTCCTGAACCCGGCGCTGCCTCCTGGCTATAGTTACACCAGCCTGCCATACTACACAGGGGTCCCGGGCCTCCCCAGCACCTTCCAGTATGGGCCTGCTGTGTTCCCTGTGGCTCCTACCTCTTCCAAGCAGCATGGTGTGAATGTCAGTGTGAATGCCTCGGCTACCCCTTTCCAACAGCCAAGTGGATATGGGTCTCATGGATACAACACTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGTGTGAATGCCTCGGCTAC
60.11
AGGTTGTTCCCAGTTTCCCC
59.81
158
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAGTGTGAATGCCTCGGCTA
60.11
AGGTTGTTCCCAGTTTCCCC
59.81
159
PCR template sequence:
CCTACCTCTTCCAAGCAGCATGGTGTGAATGTCAGTGTGAATGCCTCGGCTACCCCTTTCCAACAGCCAAGTGGATATGGGTCTCATGGATACAACACTGTATTCTTCCTTGTAAATACTGTTATTTGTATATACTGTAAATGATGACGTCGGTGGGCACTAACCGAGCCCGGGGAAACTGGGAACAACCTCAAAACCAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
28
Interacting miRNAs (#binding sites)
mmu-miR-181a-5p(1), mmu-let-7e-5p(1), mmu-let-7b-5p(1), mmu-miR-223-3p(1), mmu-let-7c-5p(1), mmu-miR-298-5p(1), mmu-miR-709(1), mmu-miR-324-5p(1), mmu-miR-138-5p(1), mmu-miR-181b-5p(1), mmu-miR-214-3p(1), mmu-let-7d-5p(1), mmu-miR-149-5p(1), mmu-miR-351-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-382-3p(1), mmu-miR-22-3p(1), mmu-miR-483-5p(1), mmu-miR-382-5p(1), mmu-miR-98-5p(1), mmu-miR-342-3p(1), mmu-miR-207(1), mmu-miR-484(1), mmu-miR-3470b(1), mmu-miR-670-5p(1), mmu-miR-1904(1), mmu-miR-296-3p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GGATACAACACTGTATTCTTCCTTGT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCUBAP2L_2942_ORF_1
1.009
0.1532204
0.99999999
2946
ORF sequence:
ATGATGACGTCGGTGGGCACTAACCGAGCCCGGGGAAACTGGGAACAACCTCAAAACCAAAACCAGACACAGCACAAGCAGCGGCCACAGGCCACTGCAGAGCAAATTCGACTTGCACAGATGATTTCGGACCATAATGATGCTGACTTTGAGGAGAAGGTGAAACAATTGATTGATATCACAGGCAAAAACCAGGATGAATGTGTGATTGCTTTGCATGACTGCAATGGAGATGTCAACAGAGCCATCAATGTTCTCCTGGAAGGAAATCCAGACACGCATTCCTGGGAGATGGTTGGGAAGAAGAAAGGAGTCTCAGGACAAAAGGATGGTGGACAAACTGAATCTAATGAAGAAGGAAAAGAAAATCGAGACCGGGACAGAGACTATAGTCGGCGACGTGGTGGGCCACCAAGACGGGGGAGAGGTGCCAGCCGTGGACGAGAGTTTCGGGGCCAGGAAAATGGATTGGATGGCACCAAGAGTGGAGGGCCTTCTGGAAGAGGCACAGACAGAGGCAGAAGAGGCCGTGGCCGTGGCAGAGGTAGTTCTGGTAGGCGAGGAGGAAGGTTTTCTGCTCAAGGAATGGGAACCTTTAACCCAGCTGATTATGCAGAGCCAGCCAACACTGATGATAACTATGGCAATAGCAGTGGCAATACATGGAACAACACTGGCCACTTTGAACCAGATGATGGAACAAGTGCATGGAGGACTGCAACAGAAGAGTGGGGAACTGAAGACTGGAATGAAGATCTTTCTGAGACCAAGATCTTTACCGCCTCTAATGTGTCTTCAGTGCCTCTGCCTGCGGAGAATGTGACAATCACTGCTGGTCAGAGAATTGACCTTGCTGTTCTGTTGGGGAAGACACCATCTTCAATGGAGAATGATTCATCTAATCTGGATCCATCTCAGGCTCCTTCCCTGGCTCAGCCTCTGGTGTTTAGTAATTCGAAGCAGAATGCCATATCACAGCCTGCTTCAGGGAGTACATTTTCTCACCATAGCATGGTGAGCATGTTGGGGAAAGGATTTGGTGATGTTGGGGAAGCTAAAGGTGGCAGTACAACAGGCTCCCAGTTCTTGGAGCAATTCAAGACTGCGCAGGCCCTTGCTCAACTGGCAGCTCAACATTCTCAATCTGGAAGCACTACCACCTCCTCTTGGGATATGGGCTCAACAACACAATCACCATCACTGGTGCAGTATGATCTGAAGAGTGCAAATGATTCAACAGTGCACAGTCCTTTTACAAAGCGCCAGGCATTCACCCCATCTTCAACCATGATGGAGGTATTCCTTCAGGAGAAGCCACCTGCAGTGGCTACCTCGACAGCTGCACCACCTCCCCCGTCTTCTCCTCTGCCAAGCAAATCCACCTCGGCTCCACAGATGTCTCCGGGGTCTTCAGACAACCAGTCCTCCAGCCCTCAGCCGGCTCAGCAGAAACTGAAACAGCAAAAGAAGAAAACCTCCTTGACGTCTAAGATTCCTGCTCTGGCTGTGGAGATGCCTGGCTCAGCAGATATCTCAGGGCTAAATCTACAGTTTGGGGCATTGCAGTTTGGGTCAGAGCCTGTCCTTTCTGATTATGAGTCCACCCCCACCACGAGCGCCTCCTCAAGCCAGGCTCCTAGTAGCCTGTATACCAGCACGGCCAGTGAGTCTTCATCTACAGTTTCATCTAATCAGAGTCAGGAGTCTGGTTATCAGAGTGGCCCGATTCAGTCGACAACTTATACCTCCCAAAATAATGCTCAGGGCCCTCTATATGAACAGAGATCCACACAGACGCGGCGGTATCCCAGCTCCATCTCTTCATCACCCCAAAAGGACCTGACTCAGGCTAAGAATGGTTTTAGCTCTGTGCAGGCCACGCAGTTACAGACCACGCAATCTGTTGAAGGTGCTACAGGCTCTGCAGTGAAATCTGAATCACCTTCCACTTCTAGTATACCCTCTCTCAATGAAACAGTACCTGCAGCTTCCTTACTGACGACAGCCAATCAGCATTCATCCTCCTTAAGTGGCTTGAGCCATACGGAGGAGATTCCAAATACCACCACCACACAACATAGCAGTGCATTATCTACACAGCAGAATACCCTTTCTTCATCAACATCTTCTGGGCGTACTTCAACATCCACTCTTTTGCATACAAGTGTGGAGAGTGAGGCAAATCTACATTCTTCCTCCAGCACCTTCTCTACCACATCCAGCACTGTCTCTGCACCTCCCCCAGTGGTCAGTGTCTCCTCCAGTCTGAATAGTGGCAGTAGTCTGGGCCTTAGCCTGGGCAGCAACTCTACTGTCACAGCCTCAACTCGAAGCTCAGTTGCTACAACTTCAGGAAAAGCTCCTCCCAACCTTCCTCCTGGAGTCCCGCCATTGTTGCCTAATCCATATATTATGGCTCCGGGGCTGTTACATGCCTATCCGCCACAAGTATATGGTTATGATGATTTACAGATGCTCCAGACAAGATTTCCATTGGATTACTACAGTATCCCGTTTCCCACACCCACCACTCCACTTACTGGGAGGGATGGTAGCCTGGCCAGCAACCCTTACTCTGGCGACCTCACCAAATTCGGCCGCGGGGATGCCTCCTCCCCAGCCCCAGCCACAACCTTGGCCCAACCCCAACAGAACCAGACGCAGACTCACCACACCACGCAGCAGACATTCCTGAACCCGGCGCTGCCTCCTGGCTATAGTTACACCAGCCTGCCATACTACACAGGGGTCCCGGGCCTCCCCAGCACCTTCCAGTATGGGCCTGCTGTGTTCCCTGTGGCTCCTACCTCTTCCAAGCAGCATGGTGTGAATGTCAGTGTGAATGCCTCGGCTACCCCTTTCCAACAGCCAAGTGGATATGGGTCTCATGGATACAACACTGTATTCTTCCTTGTAAATACTGTTATTTGTATATACTGTAAATGA
Peptide sequence:
MMTSVGTNRARGNWEQPQNQNQTQHKQRPQATAEQIRLAQMISDHNDADFEEKVKQLIDITGKNQDECVIALHDCNGDVNRAINVLLEGNPDTHSWEMVGKKKGVSGQKDGGQTESNEEGKENRDRDRDYSRRRGGPPRRGRGASRGREFRGQENGLDGTKSGGPSGRGTDRGRRGRGRGRGSSGRRGGRFSAQGMGTFNPADYAEPANTDDNYGNSSGNTWNNTGHFEPDDGTSAWRTATEEWGTEDWNEDLSETKIFTASNVSSVPLPAENVTITAGQRIDLAVLLGKTPSSMENDSSNLDPSQAPSLAQPLVFSNSKQNAISQPASGSTFSHHSMVSMLGKGFGDVGEAKGGSTTGSQFLEQFKTAQALAQLAAQHSQSGSTTTSSWDMGSTTQSPSLVQYDLKSANDSTVHSPFTKRQAFTPSSTMMEVFLQEKPPAVATSTAAPPPPSSPLPSKSTSAPQMSPGSSDNQSSSPQPAQQKLKQQKKKTSLTSKIPALAVEMPGSADISGLNLQFGALQFGSEPVLSDYESTPTTSASSSQAPSSLYTSTASESSSTVSSNQSQESGYQSGPIQSTTYTSQNNAQGPLYEQRSTQTRRYPSSISSSPQKDLTQAKNGFSSVQATQLQTTQSVEGATGSAVKSESPSTSSIPSLNETVPAASLLTTANQHSSSLSGLSHTEEIPNTTTTQHSSALSTQQNTLSSSTSSGRTSTSTLLHTSVESEANLHSSSSTFSTTSSTVSAPPPVVSVSSSLNSGSSLGLSLGSNSTVTASTRSSVATTSGKAPPNLPPGVPPLLPNPYIMAPGLLHAYPPQVYGYDDLQMLQTRFPLDYYSIPFPTPTTPLTGRDGSLASNPYSGDLTKFGRGDASSPAPATTLAQPQQNQTQTHHTTQQTFLNPALPPGYSYTSLPYYTGVPGLPSTFQYGPAVFPVAPTSSKQHGVNVSVNASATPFQQPSGYGSHGYNTVFFLVNTVICIYCK
IRESfinder result
IRESfinder score
0.545923
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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