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mmu_circArfgap3_1151
Basic information of circular RNA
PanCircBase ID:
mmu_circArfgap3_1151
mm39_Chr. Position ID:
chr15|83194450|83227341|-
Gene name:
Arfgap3
Transcript:
ENSMUST00000067215.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
11
Exon/intron indexes:
12,11,10,9,8,7,6,5,4,3,2
Exon/intron offsets:
0,3219,4090,12324,13854,17355,20269,22436,24228,26404,32772
Genomic length:
32891
Exon/intron sizes in nt:
1,35,14,41,29,14,04,76,00,00,00,00,00,000
Flanking exon/introns:
chr15:83192377-83194450|chr15:83227341-83234281
Splice length:
1151
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGTGTTTTGACTGTGGTGCCAAAAATCCCAGCTGGGCCAGCATAAGCTATGGGGTGTTTCTCTGCATTGACTGCTCTGGATCACACCGGTCGCTCGGGGTTCACTTGAGTTTTATTCGGTCCACAGAGCTGGATTCAAACTGGTCGTGGTTCCAGCTTCGATGCATGCAAGTTGGAGGGAACTCAAATGCTTCTTCCTTCTTCCACCAACATGGGTGTGCCACCAAGGACACCAACGCCAAGTACAACAGCCGTGCGGCTCAGCTCTACAGGGAGAAGATCAAGACTCTGGCCACCCAGGCCACCCGCAGACACGGCACCGATCTGTGGCTGGACAGCTGTGCGGCTCCACCTGTGTCCCCTCCTCCAAAGGAGGAAGATTTTTTTGCTTCTCACGCCTCTCTGGAGGTCAGTGGTGCTATGCAGGCATCCGCACAGCCAGAGTCAGCCTCTTCAACACCGTGGGGCTTGGAAACCACTCCAGAAAAACATGAAGGTGGGCCAGGACAAGGGCCAAGCGTGGAAGGTCTGAACACCCCTGGAAAGGCTGCACCAGAGGTTTCATCGATTATAAAAAAGAAGCCAAATCAAGCAAAAAAAGGACTTGGAGCCAAAAAAGGAAGCTTGGGAGCCCAGAAACTGACAAATACATCCTTCACTGAGATCGAAAAGCAAGCTCAGGCTGTGGATAAGAGGAAGGAGCAGGAAGACCTTGCCAGGGGTGCCCCAAAGGAGGAGTCTATTGTTTCGTCCTTGCGACTGGCCTACAAGGATCTGGAAATCAGCAGGAAGAAAGATGAAAGACTGAACCTGAGTGGCCAGAAGAAGGTGGAAGCCGAGCGGCTGGGCATGGGCTTTGGAAGCTGCAGGAGTGGCATCTCCCACTCGGTGACTTCAGACATGCAGACCATTGAGCAGGAGTCGCCCACACTGGCAAAGCCGAGGAGGAAGTACCAGGAGGACCCAGAGGACTCGTACTTCAGCTCCAGCTCCAAGTGGTCTGAGCAGAGCAGCAGCAGGTACTTTGACGACCCCATGGAGTTAAGAAGCAGCTCCTTCTCTAGCTGGGATGATGGTGCCGATTCCTACTGGAAGAAAGACAGCAGCAGAGACCCCGAGCCTGCCATGAGAAGCACCGGCTCTTCAGACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAAGACAGCAGCAGAGACCC
59.96
CGGTGTGATCCAGAGCAGTC
60.46
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGATGATGGTGCCGATTCCT
59.89
CGGTGTGATCCAGAGCAGTC
60.46
173
PCR template sequence:
GCTCCTTCTCTAGCTGGGATGATGGTGCCGATTCCTACTGGAAGAAAGACAGCAGCAGAGACCCCGAGCCTGCCATGAGAAGCACCGGCTCTTCAGACAGGTGTGTTTTGACTGTGGTGCCAAAAATCCCAGCTGGGCCAGCATAAGCTATGGGGTGTTTCTCTGCATTGACTGCTCTGGATCACACCGGTCGCTCGGGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
14
Interacting miRNAs (#binding sites)
mmu-miR-140-5p(1), mmu-miR-199a-5p(1), mmu-miR-205-5p(1), mmu-miR-29b-3p(1), mmu-miR-29a-3p(1), mmu-miR-29c-3p(1), mmu-miR-328-3p(1), mmu-miR-326-3p(1), mmu-miR-370-3p(1), mmu-miR-362-5p(1), mmu-miR-224-5p(1), mmu-miR-705(1), mmu-miR-129-5p(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GCTCTTCAGACAGGTGTGTTTTGACT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARFGAP3_1151_ORF_1
0.7875
0.310973984
0.992506676
1032
ORF sequence:
ATGCAAGTTGGAGGGAACTCAAATGCTTCTTCCTTCTTCCACCAACATGGGTGTGCCACCAAGGACACCAACGCCAAGTACAACAGCCGTGCGGCTCAGCTCTACAGGGAGAAGATCAAGACTCTGGCCACCCAGGCCACCCGCAGACACGGCACCGATCTGTGGCTGGACAGCTGTGCGGCTCCACCTGTGTCCCCTCCTCCAAAGGAGGAAGATTTTTTTGCTTCTCACGCCTCTCTGGAGGTCAGTGGTGCTATGCAGGCATCCGCACAGCCAGAGTCAGCCTCTTCAACACCGTGGGGCTTGGAAACCACTCCAGAAAAACATGAAGGTGGGCCAGGACAAGGGCCAAGCGTGGAAGGTCTGAACACCCCTGGAAAGGCTGCACCAGAGGTTTCATCGATTATAAAAAAGAAGCCAAATCAAGCAAAAAAAGGACTTGGAGCCAAAAAAGGAAGCTTGGGAGCCCAGAAACTGACAAATACATCCTTCACTGAGATCGAAAAGCAAGCTCAGGCTGTGGATAAGAGGAAGGAGCAGGAAGACCTTGCCAGGGGTGCCCCAAAGGAGGAGTCTATTGTTTCGTCCTTGCGACTGGCCTACAAGGATCTGGAAATCAGCAGGAAGAAAGATGAAAGACTGAACCTGAGTGGCCAGAAGAAGGTGGAAGCCGAGCGGCTGGGCATGGGCTTTGGAAGCTGCAGGAGTGGCATCTCCCACTCGGTGACTTCAGACATGCAGACCATTGAGCAGGAGTCGCCCACACTGGCAAAGCCGAGGAGGAAGTACCAGGAGGACCCAGAGGACTCGTACTTCAGCTCCAGCTCCAAGTGGTCTGAGCAGAGCAGCAGCAGGTACTTTGACGACCCCATGGAGTTAAGAAGCAGCTCCTTCTCTAGCTGGGATGATGGTGCCGATTCCTACTGGAAGAAAGACAGCAGCAGAGACCCCGAGCCTGCCATGAGAAGCACCGGCTCTTCAGACAGGTGTGTTTTGACTGTGGTGCCAAAAATCCCAGCTGGGCCAGCATAA
Peptide sequence:
MQVGGNSNASSFFHQHGCATKDTNAKYNSRAAQLYREKIKTLATQATRRHGTDLWLDSCAAPPVSPPPKEEDFFASHASLEVSGAMQASAQPESASSTPWGLETTPEKHEGGPGQGPSVEGLNTPGKAAPEVSSIIKKKPNQAKKGLGAKKGSLGAQKLTNTSFTEIEKQAQAVDKRKEQEDLARGAPKEESIVSSLRLAYKDLEISRKKDERLNLSGQKKVEAERLGMGFGSCRSGISHSVTSDMQTIEQESPTLAKPRRKYQEDPEDSYFSSSSKWSEQSSSRYFDDPMELRSSSFSSWDDGADSYWKKDSSRDPEPAMRSTGSSDRCVLTVVPKIPAGPA
IRESfinder result
IRESfinder score
0.4951631
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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