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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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