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mmu_circAbcc4_660
Basic information of circular RNA
PanCircBase ID:
mmu_circAbcc4_660
mm39_Chr. Position ID:
chr14|118727910|118754000|-
Gene name:
Abcc4
Transcript:
ENSMUST00000036554.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
30,29,28,27,26
Exon/intron offsets:
0,9467,10209,17094,25934
Genomic length:
26090
Exon/intron sizes in nt:
1,35,10,61,73,90,156
Flanking exon/introns:
chr14:118721852-118727910|chr14:118754000-118763623
Splice length:
660
Other database IDs:
circAtlas: mmu-Abcc4_0004
circBase: hsa_circ_0008463, circAtlas: hsa-ABCC4_0003, CIRCpedia: HSA_CIRCpedia_11197
Human Ortholog IDs:
Mature spliced Sequence:
GTTGGAATTGTGGGCAGAACCGGAGCTGGGAAAAGCTCCCTCATCTCGGCCCTCTTCAGGCTGTCAGAACCCGAGGGGAAAATCTGGATCGATAAGATCTTGACAACCGAAATTGGGCTTCACGACTTAAGGAAGAAAATGTCAATCATACCACAGGAACCTGTTCTGTTCACTGGAACCATGAGGAAAAACCTGGACCCCTTCAATGAGCACACGGACGAGGAGCTGTGGAGGGCCTTGGAGGAGGTACAACTTAAAGAGGCCATTGAAGATCTTCCTGGAAAAATGGATACTGAATTAGCAGAATCTGGATCCAATTTCAGTGTTGGACAGAGACAGTTAGTGTGCCTTGCAAGGGCCATTCTAAAGAATAACCGAATACTGATCATTGATGAAGCAACTGCAAATGTGGACCCAAGAACGGATGAGTTAATACAACAGAAGATCCGGGAGAAGTTTGCCCAGTGCACAGTGCTCACCATTGCTCACAGACTGAACACCATCATTGACAGTGACAAGATAATGGTTTTGGATTCAGGAAGACTGAAAGAATATGATGAGCCGTATGTCTTGCTGCAGAATCCAGAGAGCCTCTTTTACAAGATGGTTCAGCAACTGGGCAAGGGCGAAGCCGCTGCCCTCACCGAAACAGCAAAACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGCTGCAGAATCCAGAGAGC
60.11
CCAGATTTTCCCCTCGGGTT
59.67
176
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGCTGCAGAATCCAGAGAGC
60.11
CTGAAGAGGGCCGAGATGAG
59.61
148
PCR template sequence:
GCCGTATGTCTTGCTGCAGAATCCAGAGAGCCTCTTTTACAAGATGGTTCAGCAACTGGGCAAGGGCGAAGCCGCTGCCCTCACCGAAACAGCAAAACAGGTTGGAATTGTGGGCAGAACCGGAGCTGGGAAAAGCTCCCTCATCTCGGCCCTCTTCAGGCTGTCAGAACCCGAGGGGAAAATCTGGATCGATAAGATCT
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-207(2), mmu-miR-124-3p(1), mmu-miR-673-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AACAGCAAAACAGGTTGGAATTGTGG
siRNA sets
ATTCCAACCTGTTTTGCTG,AATTCCAACCTGTTTTGCT,CAATTCCAACCTGTTTTGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCABCC4_660_ORF_1
1.05
0.297364581
0.99838072
1182
ORF sequence:
ATGTCAATCATACCACAGGAACCTGTTCTGTTCACTGGAACCATGAGGAAAAACCTGGACCCCTTCAATGAGCACACGGACGAGGAGCTGTGGAGGGCCTTGGAGGAGGTACAACTTAAAGAGGCCATTGAAGATCTTCCTGGAAAAATGGATACTGAATTAGCAGAATCTGGATCCAATTTCAGTGTTGGACAGAGACAGTTAGTGTGCCTTGCAAGGGCCATTCTAAAGAATAACCGAATACTGATCATTGATGAAGCAACTGCAAATGTGGACCCAAGAACGGATGAGTTAATACAACAGAAGATCCGGGAGAAGTTTGCCCAGTGCACAGTGCTCACCATTGCTCACAGACTGAACACCATCATTGACAGTGACAAGATAATGGTTTTGGATTCAGGAAGACTGAAAGAATATGATGAGCCGTATGTCTTGCTGCAGAATCCAGAGAGCCTCTTTTACAAGATGGTTCAGCAACTGGGCAAGGGCGAAGCCGCTGCCCTCACCGAAACAGCAAAACAGGTTGGAATTGTGGGCAGAACCGGAGCTGGGAAAAGCTCCCTCATCTCGGCCCTCTTCAGGCTGTCAGAACCCGAGGGGAAAATCTGGATCGATAAGATCTTGACAACCGAAATTGGGCTTCACGACTTAAGGAAGAAAATGTCAATCATACCACAGGAACCTGTTCTGTTCACTGGAACCATGAGGAAAAACCTGGACCCCTTCAATGAGCACACGGACGAGGAGCTGTGGAGGGCCTTGGAGGAGGTACAACTTAAAGAGGCCATTGAAGATCTTCCTGGAAAAATGGATACTGAATTAGCAGAATCTGGATCCAATTTCAGTGTTGGACAGAGACAGTTAGTGTGCCTTGCAAGGGCCATTCTAAAGAATAACCGAATACTGATCATTGATGAAGCAACTGCAAATGTGGACCCAAGAACGGATGAGTTAATACAACAGAAGATCCGGGAGAAGTTTGCCCAGTGCACAGTGCTCACCATTGCTCACAGACTGAACACCATCATTGACAGTGACAAGATAATGGTTTTGGATTCAGGAAGACTGAAAGAATATGATGAGCCGTATGTCTTGCTGCAGAATCCAGAGAGCCTCTTTTACAAGATGGTTCAGCAACTGGGCAAGGGCGAAGCCGCTGCCCTCACCGAAACAGCAAAACAG
Peptide sequence:
MSIIPQEPVLFTGTMRKNLDPFNEHTDEELWRALEEVQLKEAIEDLPGKMDTELAESGSNFSVGQRQLVCLARAILKNNRILIIDEATANVDPRTDELIQQKIREKFAQCTVLTIAHRLNTIIDSDKIMVLDSGRLKEYDEPYVLLQNPESLFYKMVQQLGKGEAAALTETAKQVGIVGRTGAGKSSLISALFRLSEPEGKIWIDKILTTEIGLHDLRKKMSIIPQEPVLFTGTMRKNLDPFNEHTDEELWRALEEVQLKEAIEDLPGKMDTELAESGSNFSVGQRQLVCLARAILKNNRILIIDEATANVDPRTDELIQQKIREKFAQCTVLTIAHRLNTIIDSDKIMVLDSGRLKEYDEPYVLLQNPESLFYKMVQQLGKGEAAALTETAKQ
IRESfinder result
IRESfinder score
0.57081101
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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