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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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