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mmu_circAgl_1389
Basic information of circular RNA
PanCircBase ID:
mmu_circAgl_1389
mm39_Chr. Position ID:
chr3|116570177|116578289|-
Gene name:
Agl
Transcript:
ENSMUST00000040603.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
21,20,19,18,17,16,15,14,13,12
Exon/intron offsets:
0,2090,2526,2727,4197,4463,4714,5059,5991,7924
Genomic length:
8112
Exon/intron sizes in nt:
1,31,13,51,13,12,51,51,00,00,00,00,00,00,000
Flanking exon/introns:
chr3:116566549-116570177|chr3:116578289-116578708
Splice length:
1389
Other database IDs:
CIRCpedia: MMU_CIRCpedia_216622, circAtlas: mmu-Agl_0013
Human Ortholog IDs:
Mature spliced Sequence:
GTTCGGATGTTTATTTAAGGAGAGAACTTATTTGCTGGGGTGACAGTGTTAAATTGCGCTATGGGAATAAACCCGAGGACTGCCCTTATCTGTGGGCACACATGAAGAAATACACCGAGATAACTGCCACTCACTTCCAGGGAGTTCGTCTGGACAACTGCCACTCCACGCCTCTCCACGTGGCTGAGTACATGCTGGATGCTGCTAGGAAATTACAGCCCAATCTTTATGTAGTGGCTGAGCTGTTCACAGGAAGCGAAGAGCTGGACAATATCTTCGTTACTAGACTGGGCATCAGTTCCTTAATAAGAGAGGCAATGAGCGCGTATAACAGTCACGAAGAGGGCAGACTGGTCTACCGGTACGGAGGGGAACCTGTCGGCTCCTTCGTTCAGCCCTGTTTGAGGCCGCTCATGCCTGCTATCGCGCATGCCCTGTTTATGGACATCACCCACGATAATGAGTGTCCGATTGTGCACAGATCAGCCTATGATGCTCTTCCAAGTACCACAGTTGTTTCCATGGCATGCTGTGCCAGTGGAAGCACAAGAGGCTACGACGAGCTAGTGCCTCATCAGATTTCAGTGGTTGCAGAGGAGCGATTTTACACTAAGTGGAATCCTGGGGCATCACCGGCAGATACAGGGGATGTTAATGTCCATAGCGGGATTATTGCAGCCAGATGTGCCATCAATAGGCTCCATCAAGAGCTTGGAGCCAAGGGTTTCATTCAAGTGTATGTGGATCAAGTGGATGAAGACATAGTGGCTGTAACCAGGCACTCCCCGAGCATCCACCAGTCTGTTGTGGCTGTATCGAGAACTGCTTTTAGGAATCCCAAGACTTCCTTTTACAGCAAAGAAGTGCCTCAGATGTGCATCCCTGGCAAAATTGAAGAGGTAGTTCTGGAAGCTAGAACTATTGAAAGGAACACAAAACCTTATAAGAAAGACGAGAACTCGATCAATGGAATGCCGAACATGACAGTGGAACTTAGAGAACACATCCAGCTTCATGAAAGTAAAATTGTCAGACAAGCTGGAGTTGCCACAAAGGGTCCCAATGAATATATTCAGGAAATAGAATTTGAGAACCTATCTCCAGGAAGTGTTATTATATTCAGAGTTAGTCTCGATCCACACGCTCAAGTTGCTGTGGGGATTCTTCGGAACCACCTGACCCAGTTCAGCTCTCACTTTAAGTCCGGAAGCCTTGCTGTTGACAACGCAGATCCTATATTAAAAATCCCCTTCGCTTCCATTGCCTCTAAATTGACTTTGGCTGAGCTAAACCAGGTACTTTACCGATGTGAATCAGAAGAACAAGAAGACGGTGGCGGTTGCTATGACATACCAAACTGGTCATCACTTAAGTACGCAGGACTTCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGAACAAGAAGACGGTGGCG
60.6
CCCACAGATAAGGGCAGTCC
59.82
167
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGAACAAGAAGACGGTGGCG
60.6
GGGCAGTCCTCGGGTTTATT
59.74
156
PCR template sequence:
AACCAGGTACTTTACCGATGTGAATCAGAAGAACAAGAAGACGGTGGCGGTTGCTATGACATACCAAACTGGTCATCACTTAAGTACGCAGGACTTCAAGGTTCGGATGTTTATTTAAGGAGAGAACTTATTTGCTGGGGTGACAGTGTTAAATTGCGCTATGGGAATAAACCCGAGGACTGCCCTTATCTGTGGGCACA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
15
Interacting miRNAs (#binding sites)
mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-181b-5p(1), mmu-miR-127-5p(1), mmu-miR-301b-3p(1), mmu-miR-301a-3p(1), mmu-miR-705(1), mmu-miR-384-3p(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-1198-5p(1), mmu-miR-466p-5p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GCAGGACTTCAAGGTTCGGATGTTTA
siRNA sets
AAACATCCGAACCTTGAAG, TAAACATCCGAACCTTGAA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAGL_1389_ORF_1
1.1021
0.163518418
0.999999945
2676
ORF sequence:
ATGAAGAAATACACCGAGATAACTGCCACTCACTTCCAGGGAGTTCGTCTGGACAACTGCCACTCCACGCCTCTCCACGTGGCTGAGTACATGCTGGATGCTGCTAGGAAATTACAGCCCAATCTTTATGTAGTGGCTGAGCTGTTCACAGGAAGCGAAGAGCTGGACAATATCTTCGTTACTAGACTGGGCATCAGTTCCTTAATAAGAGAGGCAATGAGCGCGTATAACAGTCACGAAGAGGGCAGACTGGTCTACCGGTACGGAGGGGAACCTGTCGGCTCCTTCGTTCAGCCCTGTTTGAGGCCGCTCATGCCTGCTATCGCGCATGCCCTGTTTATGGACATCACCCACGATAATGAGTGTCCGATTGTGCACAGATCAGCCTATGATGCTCTTCCAAGTACCACAGTTGTTTCCATGGCATGCTGTGCCAGTGGAAGCACAAGAGGCTACGACGAGCTAGTGCCTCATCAGATTTCAGTGGTTGCAGAGGAGCGATTTTACACTAAGTGGAATCCTGGGGCATCACCGGCAGATACAGGGGATGTTAATGTCCATAGCGGGATTATTGCAGCCAGATGTGCCATCAATAGGCTCCATCAAGAGCTTGGAGCCAAGGGTTTCATTCAAGTGTATGTGGATCAAGTGGATGAAGACATAGTGGCTGTAACCAGGCACTCCCCGAGCATCCACCAGTCTGTTGTGGCTGTATCGAGAACTGCTTTTAGGAATCCCAAGACTTCCTTTTACAGCAAAGAAGTGCCTCAGATGTGCATCCCTGGCAAAATTGAAGAGGTAGTTCTGGAAGCTAGAACTATTGAAAGGAACACAAAACCTTATAAGAAAGACGAGAACTCGATCAATGGAATGCCGAACATGACAGTGGAACTTAGAGAACACATCCAGCTTCATGAAAGTAAAATTGTCAGACAAGCTGGAGTTGCCACAAAGGGTCCCAATGAATATATTCAGGAAATAGAATTTGAGAACCTATCTCCAGGAAGTGTTATTATATTCAGAGTTAGTCTCGATCCACACGCTCAAGTTGCTGTGGGGATTCTTCGGAACCACCTGACCCAGTTCAGCTCTCACTTTAAGTCCGGAAGCCTTGCTGTTGACAACGCAGATCCTATATTAAAAATCCCCTTCGCTTCCATTGCCTCTAAATTGACTTTGGCTGAGCTAAACCAGGTACTTTACCGATGTGAATCAGAAGAACAAGAAGACGGTGGCGGTTGCTATGACATACCAAACTGGTCATCACTTAAGTACGCAGGACTTCAAGGTTCGGATGTTTATTTAAGGAGAGAACTTATTTGCTGGGGTGACAGTGTTAAATTGCGCTATGGGAATAAACCCGAGGACTGCCCTTATCTGTGGGCACACATGAAGAAATACACCGAGATAACTGCCACTCACTTCCAGGGAGTTCGTCTGGACAACTGCCACTCCACGCCTCTCCACGTGGCTGAGTACATGCTGGATGCTGCTAGGAAATTACAGCCCAATCTTTATGTAGTGGCTGAGCTGTTCACAGGAAGCGAAGAGCTGGACAATATCTTCGTTACTAGACTGGGCATCAGTTCCTTAATAAGAGAGGCAATGAGCGCGTATAACAGTCACGAAGAGGGCAGACTGGTCTACCGGTACGGAGGGGAACCTGTCGGCTCCTTCGTTCAGCCCTGTTTGAGGCCGCTCATGCCTGCTATCGCGCATGCCCTGTTTATGGACATCACCCACGATAATGAGTGTCCGATTGTGCACAGATCAGCCTATGATGCTCTTCCAAGTACCACAGTTGTTTCCATGGCATGCTGTGCCAGTGGAAGCACAAGAGGCTACGACGAGCTAGTGCCTCATCAGATTTCAGTGGTTGCAGAGGAGCGATTTTACACTAAGTGGAATCCTGGGGCATCACCGGCAGATACAGGGGATGTTAATGTCCATAGCGGGATTATTGCAGCCAGATGTGCCATCAATAGGCTCCATCAAGAGCTTGGAGCCAAGGGTTTCATTCAAGTGTATGTGGATCAAGTGGATGAAGACATAGTGGCTGTAACCAGGCACTCCCCGAGCATCCACCAGTCTGTTGTGGCTGTATCGAGAACTGCTTTTAGGAATCCCAAGACTTCCTTTTACAGCAAAGAAGTGCCTCAGATGTGCATCCCTGGCAAAATTGAAGAGGTAGTTCTGGAAGCTAGAACTATTGAAAGGAACACAAAACCTTATAAGAAAGACGAGAACTCGATCAATGGAATGCCGAACATGACAGTGGAACTTAGAGAACACATCCAGCTTCATGAAAGTAAAATTGTCAGACAAGCTGGAGTTGCCACAAAGGGTCCCAATGAATATATTCAGGAAATAGAATTTGAGAACCTATCTCCAGGAAGTGTTATTATATTCAGAGTTAGTCTCGATCCACACGCTCAAGTTGCTGTGGGGATTCTTCGGAACCACCTGACCCAGTTCAGCTCTCACTTTAAGTCCGGAAGCCTTGCTGTTGACAACGCAGATCCTATATTAAAAATCCCCTTCGCTTCCATTGCCTCTAAATTGACTTTGGCTGAGCTAAACCAGGTACTTTACCGATGTGAATCAGAAGAACAAGAAGACGGTGGCGGTTGCTATGACATACCAAACTGGTCATCACTTAAGTACGCAGGACTTCAA
Peptide sequence:
MKKYTEITATHFQGVRLDNCHSTPLHVAEYMLDAARKLQPNLYVVAELFTGSEELDNIFVTRLGISSLIREAMSAYNSHEEGRLVYRYGGEPVGSFVQPCLRPLMPAIAHALFMDITHDNECPIVHRSAYDALPSTTVVSMACCASGSTRGYDELVPHQISVVAEERFYTKWNPGASPADTGDVNVHSGIIAARCAINRLHQELGAKGFIQVYVDQVDEDIVAVTRHSPSIHQSVVAVSRTAFRNPKTSFYSKEVPQMCIPGKIEEVVLEARTIERNTKPYKKDENSINGMPNMTVELREHIQLHESKIVRQAGVATKGPNEYIQEIEFENLSPGSVIIFRVSLDPHAQVAVGILRNHLTQFSSHFKSGSLAVDNADPILKIPFASIASKLTLAELNQVLYRCESEEQEDGGGCYDIPNWSSLKYAGLQGSDVYLRRELICWGDSVKLRYGNKPEDCPYLWAHMKKYTEITATHFQGVRLDNCHSTPLHVAEYMLDAARKLQPNLYVVAELFTGSEELDNIFVTRLGISSLIREAMSAYNSHEEGRLVYRYGGEPVGSFVQPCLRPLMPAIAHALFMDITHDNECPIVHRSAYDALPSTTVVSMACCASGSTRGYDELVPHQISVVAEERFYTKWNPGASPADTGDVNVHSGIIAARCAINRLHQELGAKGFIQVYVDQVDEDIVAVTRHSPSIHQSVVAVSRTAFRNPKTSFYSKEVPQMCIPGKIEEVVLEARTIERNTKPYKKDENSINGMPNMTVELREHIQLHESKIVRQAGVATKGPNEYIQEIEFENLSPGSVIIFRVSLDPHAQVAVGILRNHLTQFSSHFKSGSLAVDNADPILKIPFASIASKLTLAELNQVLYRCESEEQEDGGGCYDIPNWSSLKYAGLQ
IRESfinder result
IRESfinder score
0.533749789
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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