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mmu_circAbcc4_457
Basic information of circular RNA
PanCircBase ID:
mmu_circAbcc4_457
mm39_Chr. Position ID:
chr14|118891561|118906519|-
Gene name:
Abcc4
Transcript:
ENSMUST00000036554.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
4,3,2
Exon/intron offsets:
0,14197,14847
Genomic length:
14958
Exon/intron sizes in nt:
225,121,111
Flanking exon/introns:
chr14:118869599-118891561|chr14:118906519-118943447
Splice length:
457
Other database IDs:
circBase: mmu_circ_0004979, CIRCpedia: MMU_CIRCpedia_4569, circAtlas: mmu-Abcc4_0013
circBase: hsa_circ_0030608, circAtlas: hsa-ABCC4_0015, CIRCpedia: HSA_CIRCpedia_11243
Human Ortholog IDs:
Mature spliced Sequence:
GTGGCTCAACCCGCTGTTTAAAACTGGTCATAAGCGGAGACTGGAAGAAGATGACATGTTCTCAGTGCTTCCAGAAGATCGCTCAAAGCACCTCGGAGAGGAGCTTCAACGGTACTGGGATAAAGAACTTCTGCGAGCCAAGAAGGACTCGAGGAAGCCCTCCTTAACAAAGGCAATCATAAAGTGTTACTGGAAGTCTTACCTGATTTTGGGAATTTTTACGTTAATTGAGGAGGGCACTCGAGTAGTTCAGCCCTTATTTTTAGGGAAAATTATTGAATATTTTGAGAAGTATGACCCCGACGACTCGGTGGCTTTGCATACAGCTTATGGCTACGCAGCAGTGCTGTCCATGTGCACGCTCATCCTGGCCATACTACATCATTTGTACTTCTACCACGTGCAGTGCGCCGGGATGAGGCTGCGGGTTGCCATGTGCCACATGATTTACCGGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CACGCTCATCCTGGCCATAC
60.88
CCAGTCTCCGCTTATGACCA
59.18
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGCTCATCCTGGCCATACTA
59.03
CCAGTCTCCGCTTATGACCA
59.18
142
PCR template sequence:
CACGCTCATCCTGGCCATACTACATCATTTGTACTTCTACCACGTGCAGTGCGCCGGGATGAGGCTGCGGGTTGCCATGTGCCACATGATTTACCGGAAGGTGGCTCAACCCGCTGTTTAAAACTGGTCATAAGCGGAGACTGGAAGAAGATGACATGTTCTCAGTGCTTCCAGAAGATCGCTCAAAGCACCTCGGAGAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-127-5p(1), mmu-miR-499-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GATTTACCGGAAGGTGGCTCAACCCG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCABCC4_457_ORF_1
1.0097
0.210373397
0.628510532
423
ORF sequence:
ATGTTCTCAGTGCTTCCAGAAGATCGCTCAAAGCACCTCGGAGAGGAGCTTCAACGGTACTGGGATAAAGAACTTCTGCGAGCCAAGAAGGACTCGAGGAAGCCCTCCTTAACAAAGGCAATCATAAAGTGTTACTGGAAGTCTTACCTGATTTTGGGAATTTTTACGTTAATTGAGGAGGGCACTCGAGTAGTTCAGCCCTTATTTTTAGGGAAAATTATTGAATATTTTGAGAAGTATGACCCCGACGACTCGGTGGCTTTGCATACAGCTTATGGCTACGCAGCAGTGCTGTCCATGTGCACGCTCATCCTGGCCATACTACATCATTTGTACTTCTACCACGTGCAGTGCGCCGGGATGAGGCTGCGGGTTGCCATGTGCCACATGATTTACCGGAAGGTGGCTCAACCCGCTGTTTAA
Peptide sequence:
MFSVLPEDRSKHLGEELQRYWDKELLRAKKDSRKPSLTKAIIKCYWKSYLILGIFTLIEEGTRVVQPLFLGKIIEYFEKYDPDDSVALHTAYGYAAVLSMCTLILAILHHLYFYHVQCAGMRLRVAMCHMIYRKVAQPAV
IRESfinder result
IRESfinder score
0.497394211
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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