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mmu_circGtf2ird1_816
Basic information of circular RNA
PanCircBase ID:
mmu_circGtf2ird1_816
mm39_Chr. Position ID:
chr5|134413872|134432675|-
Gene name:
Gtf2ird1
Transcript:
ENSMUST00000111244.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
16,15,14,13,12,11,10,9,8,7
Exon/intron offsets:
0,771,3415,4112,4655,5803,7376,10598,17092,18713
Genomic length:
18803
Exon/intron sizes in nt:
66,48,90,81,38,109,26,184,84,90
Flanking exon/introns:
chr5:134412777-134413872|chr5:134432675-134433509
Splice length:
816
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GACAGACGCCTGCAGGGCCTGCTGGGCCTCTCATCCAGAATGTCCATGCTTCCAAGCGCATCCTCTTCTCCATCGTCCATGACAAGTCAGAGAAGTGGGATCCCTTCATCAAGGAAATGGAGGACATCAATACCCTGCGGGAGTGCGTGCAGATTCTGTTTAACAGCAGATACGCGGAAGCCCTGGGCCTGGACCACATGGTCCCTGTGCCCTATAGGAAGATTGCCTGTGACCCCGAGGCTGTGGAAATTGTGGGTATTCCAGACAAGATCCCCTTCAAGCGACCCTGTACTTACGGAGTGCCGAAGCTGAAGAGGATTCTGGAGGAGCGACACAGCATTCACTTCATTATCAAGAGAATGTTCGATGAGCGCATTTTCACAGGGAACAAGTTTACCAAAGACCCCATGAAGCTGGAGCCAGCTAGCCCACCAGAAGACACTTCCACAGAAGTCTGTAGGGACAGCATGCTGGACCTGGCTGGGACTGCTTGGTCAGACATGAGCAGCGTCTCTGAAGACTGTGGGCCAGGAACCTCAGGAGAGATAGCAATGTTGAGGCCTATCAAAATCGAGCCAGAGGAGCTGGACATTATTCAGGTTACGGTCTCAGATCCTTCACCTACCTCTGAGGAGATGACTGACTCGTTACCTGGGCATCTGCCCTCAGAGGATTCCGGTTATGGGATGGAAATGCCGGCTGACAAAGGCCCCAGTGAAGAACCGTGGTCAGAAGAGAGGCCGGCCGAAGAGAGCCCTGGTGACGTGATCCGGCCCCTACGGAAGCAGGTGGAGATGCTGTTCAACACGAAATATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AACCGTGGTCAGAAGAGAGG
59.03
TGGAGAAGAGGATGCGCTTG
60.11
168
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AACCGTGGTCAGAAGAGAGG
59.03
GAGAAGAGGATGCGCTTGGA
59.82
166
PCR template sequence:
GAAGAACCGTGGTCAGAAGAGAGGCCGGCCGAAGAGAGCCCTGGTGACGTGATCCGGCCCCTACGGAAGCAGGTGGAGATGCTGTTCAACACGAAATATGGACAGACGCCTGCAGGGCCTGCTGGGCCTCTCATCCAGAATGTCCATGCTTCCAAGCGCATCCTCTTCTCCATCGTCCATGACAAGTCAGAGAAGTGGGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-let-7b-5p(1), mmu-miR-214-3p(1), mmu-miR-149-5p(1), mmu-miR-136-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AACACGAAATATGGACAGACGCCTGC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCGTF2IRD1_816_ORF_1
1.2345
0.428249208
0.999938606
1515
ORF sequence:
ATGGAGGACATCAATACCCTGCGGGAGTGCGTGCAGATTCTGTTTAACAGCAGATACGCGGAAGCCCTGGGCCTGGACCACATGGTCCCTGTGCCCTATAGGAAGATTGCCTGTGACCCCGAGGCTGTGGAAATTGTGGGTATTCCAGACAAGATCCCCTTCAAGCGACCCTGTACTTACGGAGTGCCGAAGCTGAAGAGGATTCTGGAGGAGCGACACAGCATTCACTTCATTATCAAGAGAATGTTCGATGAGCGCATTTTCACAGGGAACAAGTTTACCAAAGACCCCATGAAGCTGGAGCCAGCTAGCCCACCAGAAGACACTTCCACAGAAGTCTGTAGGGACAGCATGCTGGACCTGGCTGGGACTGCTTGGTCAGACATGAGCAGCGTCTCTGAAGACTGTGGGCCAGGAACCTCAGGAGAGATAGCAATGTTGAGGCCTATCAAAATCGAGCCAGAGGAGCTGGACATTATTCAGGTTACGGTCTCAGATCCTTCACCTACCTCTGAGGAGATGACTGACTCGTTACCTGGGCATCTGCCCTCAGAGGATTCCGGTTATGGGATGGAAATGCCGGCTGACAAAGGCCCCAGTGAAGAACCGTGGTCAGAAGAGAGGCCGGCCGAAGAGAGCCCTGGTGACGTGATCCGGCCCCTACGGAAGCAGGTGGAGATGCTGTTCAACACGAAATATGGACAGACGCCTGCAGGGCCTGCTGGGCCTCTCATCCAGAATGTCCATGCTTCCAAGCGCATCCTCTTCTCCATCGTCCATGACAAGTCAGAGAAGTGGGATCCCTTCATCAAGGAAATGGAGGACATCAATACCCTGCGGGAGTGCGTGCAGATTCTGTTTAACAGCAGATACGCGGAAGCCCTGGGCCTGGACCACATGGTCCCTGTGCCCTATAGGAAGATTGCCTGTGACCCCGAGGCTGTGGAAATTGTGGGTATTCCAGACAAGATCCCCTTCAAGCGACCCTGTACTTACGGAGTGCCGAAGCTGAAGAGGATTCTGGAGGAGCGACACAGCATTCACTTCATTATCAAGAGAATGTTCGATGAGCGCATTTTCACAGGGAACAAGTTTACCAAAGACCCCATGAAGCTGGAGCCAGCTAGCCCACCAGAAGACACTTCCACAGAAGTCTGTAGGGACAGCATGCTGGACCTGGCTGGGACTGCTTGGTCAGACATGAGCAGCGTCTCTGAAGACTGTGGGCCAGGAACCTCAGGAGAGATAGCAATGTTGAGGCCTATCAAAATCGAGCCAGAGGAGCTGGACATTATTCAGGTTACGGTCTCAGATCCTTCACCTACCTCTGAGGAGATGACTGACTCGTTACCTGGGCATCTGCCCTCAGAGGATTCCGGTTATGGGATGGAAATGCCGGCTGACAAAGGCCCCAGTGAAGAACCGTGGTCAGAAGAGAGGCCGGCCGAAGAGAGCCCTGGTGACGTGATCCGGCCCCTACGGAAGCAGGTGGAGATGCTGTTCAACACGAAATAT
Peptide sequence:
MEDINTLRECVQILFNSRYAEALGLDHMVPVPYRKIACDPEAVEIVGIPDKIPFKRPCTYGVPKLKRILEERHSIHFIIKRMFDERIFTGNKFTKDPMKLEPASPPEDTSTEVCRDSMLDLAGTAWSDMSSVSEDCGPGTSGEIAMLRPIKIEPEELDIIQVTVSDPSPTSEEMTDSLPGHLPSEDSGYGMEMPADKGPSEEPWSEERPAEESPGDVIRPLRKQVEMLFNTKYGQTPAGPAGPLIQNVHASKRILFSIVHDKSEKWDPFIKEMEDINTLRECVQILFNSRYAEALGLDHMVPVPYRKIACDPEAVEIVGIPDKIPFKRPCTYGVPKLKRILEERHSIHFIIKRMFDERIFTGNKFTKDPMKLEPASPPEDTSTEVCRDSMLDLAGTAWSDMSSVSEDCGPGTSGEIAMLRPIKIEPEELDIIQVTVSDPSPTSEEMTDSLPGHLPSEDSGYGMEMPADKGPSEEPWSEERPAEESPGDVIRPLRKQVEMLFNTKY
IRESfinder result
IRESfinder score
0.396482791
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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