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mmu_circAdgb_678
Basic information of circular RNA
PanCircBase ID:
mmu_circAdgb_678
mm39_Chr. Position ID:
chr10|10281028|10287632|-
Gene name:
Adgb
Transcript:
ENSMUST00000179956.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
17,16,15,14,13,12
Exon/intron offsets:
0,673,1827,2157,5502,6429
Genomic length:
6604
Exon/intron sizes in nt:
64,179,39,130,91,175
Flanking exon/introns:
chr10:10278751-10281028|chr10:10287632-10298409
Splice length:
678
Other database IDs:
circAtlas: mmu-Adgb_0015
Human Ortholog IDs:
Mature spliced Sequence:
GCGAATTCTGCGGAGAAACTTAGGGAATATGGTCTTTCTCACATCTGTAGCCATCCTGTGCTGGTGACCAGAAGTAGGTCTTGCCCTCTTGTGTCACCCCCCAAACCTCCTCCCTTACCTGCCTGGAAACTCATTCGCCATAAAAAGGAAACAGTGATAACCGATGAAGCTCAAGATGCTGTCCCGAAGAAGCCTGAGCAGTTCCTTGAGATTTCAAGTCCATTTTTGAATTATAGAATGACTCCATTTACGATTCCAACAGAAACACATTTTGTCCAATCTGTCATTAAGAAAGGAACACCGCTGGGATCCAGTCTTCCTCCCCTCGTGGAAAATGATTTAGTTGCAAGTACCAGCCAAGGGGAAATGAGCATAGTAAATGGAAACCAGTCTCAGGGCAATATTGCATTGCAAATTACACTTGGAAAAGGTAAAGATGAACCTTCAGAGCCTGCATTGGCGGACTTCCACCAACTTGAGGCTACTAGTTTGGACAGGGATTTGATCAGCCTGACTACAGCGACACTGGACAAGTCACAGGAAGAGTTAGCAATAAACGAAGGGGTTGCCAAAGAGATATGGTTAGACTTCGAAGACTTTTGTGTGTGCTTTCACCATATATATATTTTCCACAAGCCACATTCTTATTGTCTTAATTTTCAAAAATCAGAATTCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACTTTTGTGTGTGCTTTCACCA
59.44
TGACACAAGAGGGCAAGACC
59.89
179
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACTTTTGTGTGTGCTTTCACCA
59.44
GACACAAGAGGGCAAGACCT
59.6
178
PCR template sequence:
ATGGTTAGACTTCGAAGACTTTTGTGTGTGCTTTCACCATATATATATTTTCCACAAGCCACATTCTTATTGTCTTAATTTTCAAAAATCAGAATTCAAGGCGAATTCTGCGGAGAAACTTAGGGAATATGGTCTTTCTCACATCTGTAGCCATCCTGTGCTGGTGACCAGAAGTAGGTCTTGCCCTCTTGTGTCACCCC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-7b-5p(1), mmu-miR-216a-5p(1), mmu-miR-7a-5p(1), mmu-miR-125b-5p(1), mmu-miR-339-5p(1), mmu-miR-381-3p(1), mmu-miR-125a-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-1198-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ATCAGAATTCAAGGCGAATTCTGCGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCADGB_678_ORF_1
0.8912
-0.014672282
0.987842673
1119
ORF sequence:
ATGACTCCATTTACGATTCCAACAGAAACACATTTTGTCCAATCTGTCATTAAGAAAGGAACACCGCTGGGATCCAGTCTTCCTCCCCTCGTGGAAAATGATTTAGTTGCAAGTACCAGCCAAGGGGAAATGAGCATAGTAAATGGAAACCAGTCTCAGGGCAATATTGCATTGCAAATTACACTTGGAAAAGGTAAAGATGAACCTTCAGAGCCTGCATTGGCGGACTTCCACCAACTTGAGGCTACTAGTTTGGACAGGGATTTGATCAGCCTGACTACAGCGACACTGGACAAGTCACAGGAAGAGTTAGCAATAAACGAAGGGGTTGCCAAAGAGATATGGTTAGACTTCGAAGACTTTTGTGTGTGCTTTCACCATATATATATTTTCCACAAGCCACATTCTTATTGTCTTAATTTTCAAAAATCAGAATTCAAGGCGAATTCTGCGGAGAAACTTAGGGAATATGGTCTTTCTCACATCTGTAGCCATCCTGTGCTGGTGACCAGAAGTAGGTCTTGCCCTCTTGTGTCACCCCCCAAACCTCCTCCCTTACCTGCCTGGAAACTCATTCGCCATAAAAAGGAAACAGTGATAACCGATGAAGCTCAAGATGCTGTCCCGAAGAAGCCTGAGCAGTTCCTTGAGATTTCAAGTCCATTTTTGAATTATAGAATGACTCCATTTACGATTCCAACAGAAACACATTTTGTCCAATCTGTCATTAAGAAAGGAACACCGCTGGGATCCAGTCTTCCTCCCCTCGTGGAAAATGATTTAGTTGCAAGTACCAGCCAAGGGGAAATGAGCATAGTAAATGGAAACCAGTCTCAGGGCAATATTGCATTGCAAATTACACTTGGAAAAGGTAAAGATGAACCTTCAGAGCCTGCATTGGCGGACTTCCACCAACTTGAGGCTACTAGTTTGGACAGGGATTTGATCAGCCTGACTACAGCGACACTGGACAAGTCACAGGAAGAGTTAGCAATAAACGAAGGGGTTGCCAAAGAGATATGGTTAGACTTCGAAGACTTTTGTGTGTGCTTTCACCATATATATATTTTCCACAAGCCACATTCTTATTGTCTTAATTTTCAAAAATCAGAATTCAAG
Peptide sequence:
MTPFTIPTETHFVQSVIKKGTPLGSSLPPLVENDLVASTSQGEMSIVNGNQSQGNIALQITLGKGKDEPSEPALADFHQLEATSLDRDLISLTTATLDKSQEELAINEGVAKEIWLDFEDFCVCFHHIYIFHKPHSYCLNFQKSEFKANSAEKLREYGLSHICSHPVLVTRSRSCPLVSPPKPPPLPAWKLIRHKKETVITDEAQDAVPKKPEQFLEISSPFLNYRMTPFTIPTETHFVQSVIKKGTPLGSSLPPLVENDLVASTSQGEMSIVNGNQSQGNIALQITLGKGKDEPSEPALADFHQLEATSLDRDLISLTTATLDKSQEELAINEGVAKEIWLDFEDFCVCFHHIYIFHKPHSYCLNFQKSEFK
IRESfinder result
IRESfinder score
0.719702309
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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