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mmu_circAbcc1_297
Basic information of circular RNA
PanCircBase ID:
mmu_circAbcc1_297
mm39_Chr. Position ID:
chr16|14237563|14241124|+
Gene name:
Abcc1
Transcript:
ENSMUST00000130671.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
11,12
Exon/intron offsets:
0,3357
Genomic length:
3561
Exon/intron sizes in nt:
93,204
Flanking exon/introns:
chr16:14231246-14237563|chr16:14241124-14254370
Splice length:
297
Other database IDs:
CIRCpedia: MMU_CIRCpedia_9455, circAtlas: mmu-Abcc1_0014
circBase: hsa_circ_0038111, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_16597
Human Ortholog IDs:
Mature spliced Sequence:
AGCCTGGGCCCTTCTGTGCTGGCTGGAGTGGCTGTGATGATTCTCATGGTACCCTTAAATGCTGTGATGGCCATGAAGACCAAGACCTACCAGGTGGCACACATGAAGAGCAAAGACAACCGAATCAAGCTGATGAACGAGATCCTCAATGGGATCAAAGTCCTCAAGCTGTACGCCTGGGAGCTGGCCTTCCAGGACAAAGTCATGAGCATCAGGCAGGAGGAGCTCAAGGTGCTGAAGAAATCTGCCTACTTGGCAGCTGTAGGCACATTCACGTGGGTGTGCACACCTTTCCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGAGCTCAAGGTGCTGAAGA
59.68
TCTTCATGGCCATCACAGCA
59.67
155
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAGGAGCTCAAGGTGCTGAA
59.68
TCTTCATGGCCATCACAGCA
59.67
157
PCR template sequence:
CAAAGTCATGAGCATCAGGCAGGAGGAGCTCAAGGTGCTGAAGAAATCTGCCTACTTGGCAGCTGTAGGCACATTCACGTGGGTGTGCACACCTTTCCTGAGCCTGGGCCCTTCTGTGCTGGCTGGAGTGGCTGTGATGATTCTCATGGTACCCTTAAATGCTGTGATGGCCATGAAGACCAAGACCTACCAGGTGGCAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-22-3p(1), mmu-miR-466a-5p(1), mmu-miR-466p-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CACACCTTTCCTGAGCCTGGGCCCTT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCABCC1_297_ORF_1
1.2934
0.541162586
0.96731332
558
ORF sequence:
ATGATTCTCATGGTACCCTTAAATGCTGTGATGGCCATGAAGACCAAGACCTACCAGGTGGCACACATGAAGAGCAAAGACAACCGAATCAAGCTGATGAACGAGATCCTCAATGGGATCAAAGTCCTCAAGCTGTACGCCTGGGAGCTGGCCTTCCAGGACAAAGTCATGAGCATCAGGCAGGAGGAGCTCAAGGTGCTGAAGAAATCTGCCTACTTGGCAGCTGTAGGCACATTCACGTGGGTGTGCACACCTTTCCTGAGCCTGGGCCCTTCTGTGCTGGCTGGAGTGGCTGTGATGATTCTCATGGTACCCTTAAATGCTGTGATGGCCATGAAGACCAAGACCTACCAGGTGGCACACATGAAGAGCAAAGACAACCGAATCAAGCTGATGAACGAGATCCTCAATGGGATCAAAGTCCTCAAGCTGTACGCCTGGGAGCTGGCCTTCCAGGACAAAGTCATGAGCATCAGGCAGGAGGAGCTCAAGGTGCTGAAGAAATCTGCCTACTTGGCAGCTGTAGGCACATTCACGTGGGTGTGCACACCTTTCCTG
Peptide sequence:
MILMVPLNAVMAMKTKTYQVAHMKSKDNRIKLMNEILNGIKVLKLYAWELAFQDKVMSIRQEELKVLKKSAYLAAVGTFTWVCTPFLSLGPSVLAGVAVMILMVPLNAVMAMKTKTYQVAHMKSKDNRIKLMNEILNGIKVLKLYAWELAFQDKVMSIRQEELKVLKKSAYLAAVGTFTWVCTPFL
IRESfinder result
IRESfinder score
0.329424537
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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