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mmu_circAbcc1_1065
Basic information of circular RNA
PanCircBase ID:
mmu_circAbcc1_1065
mm39_Chr. Position ID:
chr16|14221853|14241124|+
Gene name:
Abcc1
Transcript:
ENSMUST00000130671.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
6,7,8,9,10,11,12
Exon/intron offsets:
0,1024,6710,7459,9231,15710,19067
Genomic length:
19271
Exon/intron sizes in nt:
62,13,22,34,17,81,62,90,000
Flanking exon/introns:
chr16:14214340-14221853|chr16:14241124-14254370
Splice length:
1065
Other database IDs:
CIRCpedia: MMU_CIRCpedia_9435, circAtlas: mmu-Abcc1_0012
circBase: hsa_circ_0038095, circAtlas: hsa-ABCC1_0059, CIRCpedia: HSA_CIRCpedia_16581
Human Ortholog IDs:
Mature spliced Sequence:
AATCCATGCCCAGAATCCAGTGCCTCTTTCCTTTCCAGGATTACTTTCTGGTGGATTACAGGGATGATGGTGCACGGCTACCGCCAGCCCCTGGAGAGCAGTGACCTCTGGTCATTGAATAAGGAGGACACATCAGAAGAAGTGGTACCTGTGCTGGTGAATAACTGGAAGAAGGAATGTGATAAGTCAAGGAAGCAGCCTGTACGGATTGTGTATGCCCCTCCCAAAGATCCCAGCAAGCCTAAGGGAAGTTCCCAGTTGGATGTGAATGAGGAGGTGGAGGCACTGATTGTCAAGTCACCCCACAAGGATCGGGAGCCCTCTCTGTTCAAGGTGTTATACAAGACTTTTGGTCCCTACTTCCTCATGAGCTTCCTGTACAAGGCCCTTCATGACCTGATGATGTTTGCCGGCCCCAAGATCTTGGAATTGATTATCAACTTCGTGAATGACAGGGAGGCTCCCGACTGGCAGGGCTACTTTTACACAGCACTGCTGTTTGTCAGCGCCTGTCTGCAGACACTGGCACTCCACCAGTACTTTCATATCTGCTTCGTCAGTGGCATGCGCATCAAGACTGCTGTGGTGGGCGCTGTCTATCGTAAGGCTCTTTTGATCACCAATGCAGCTAGAAAATCTTCCACGGTCGGAGAGATTGTCAACCTCATGTCCGTGGATGCTCAGCGCTTCATGGACTTGGCCACGTACATTAACATGATCTGGTCAGCCCCTCTGCAAGTCATCCTAGCCCTCTACTTCCTGTGGCTGAGCCTGGGCCCTTCTGTGCTGGCTGGAGTGGCTGTGATGATTCTCATGGTACCCTTAAATGCTGTGATGGCCATGAAGACCAAGACCTACCAGGTGGCACACATGAAGAGCAAAGACAACCGAATCAAGCTGATGAACGAGATCCTCAATGGGATCAAAGTCCTCAAGCTGTACGCCTGGGAGCTGGCCTTCCAGGACAAAGTCATGAGCATCAGGCAGGAGGAGCTCAAGGTGCTGAAGAAATCTGCCTACTTGGCAGCTGTAGGCACATTCACGTGGGTGTGCACACCTTTCCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGAGCTCAAGGTGCTGAAGA
59.68
CGTGCACCATCATCCCTGTA
59.82
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAGGAGCTCAAGGTGCTGAA
59.68
CGTGCACCATCATCCCTGTA
59.82
154
PCR template sequence:
CAAAGTCATGAGCATCAGGCAGGAGGAGCTCAAGGTGCTGAAGAAATCTGCCTACTTGGCAGCTGTAGGCACATTCACGTGGGTGTGCACACCTTTCCTGAATCCATGCCCAGAATCCAGTGCCTCTTTCCTTTCCAGGATTACTTTCTGGTGGATTACAGGGATGATGGTGCACGGCTACCGCCAGCCCCTGGAGAGCA
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-382-3p(3), mmu-miR-199a-5p(1), mmu-miR-298-5p(1), mmu-miR-339-5p(1), mmu-miR-24-3p(1), mmu-miR-22-3p(1), mmu-miR-297a-5p(1), mmu-miR-466a-5p(1), mmu-miR-466p-5p(1), mmu-miR-484(1)
siRNAs for circular RNA silencing
Junction sequence
CACACCTTTCCTGAATCCATGCCCAG
siRNA sets
CATGGATTCAGGAAAGGTG,ATGGATTCAGGAAAGGTGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCABCC1_1065_ORF_1
1.315
0.428674278
0.999999006
2067
ORF sequence:
ATGATGGTGCACGGCTACCGCCAGCCCCTGGAGAGCAGTGACCTCTGGTCATTGAATAAGGAGGACACATCAGAAGAAGTGGTACCTGTGCTGGTGAATAACTGGAAGAAGGAATGTGATAAGTCAAGGAAGCAGCCTGTACGGATTGTGTATGCCCCTCCCAAAGATCCCAGCAAGCCTAAGGGAAGTTCCCAGTTGGATGTGAATGAGGAGGTGGAGGCACTGATTGTCAAGTCACCCCACAAGGATCGGGAGCCCTCTCTGTTCAAGGTGTTATACAAGACTTTTGGTCCCTACTTCCTCATGAGCTTCCTGTACAAGGCCCTTCATGACCTGATGATGTTTGCCGGCCCCAAGATCTTGGAATTGATTATCAACTTCGTGAATGACAGGGAGGCTCCCGACTGGCAGGGCTACTTTTACACAGCACTGCTGTTTGTCAGCGCCTGTCTGCAGACACTGGCACTCCACCAGTACTTTCATATCTGCTTCGTCAGTGGCATGCGCATCAAGACTGCTGTGGTGGGCGCTGTCTATCGTAAGGCTCTTTTGATCACCAATGCAGCTAGAAAATCTTCCACGGTCGGAGAGATTGTCAACCTCATGTCCGTGGATGCTCAGCGCTTCATGGACTTGGCCACGTACATTAACATGATCTGGTCAGCCCCTCTGCAAGTCATCCTAGCCCTCTACTTCCTGTGGCTGAGCCTGGGCCCTTCTGTGCTGGCTGGAGTGGCTGTGATGATTCTCATGGTACCCTTAAATGCTGTGATGGCCATGAAGACCAAGACCTACCAGGTGGCACACATGAAGAGCAAAGACAACCGAATCAAGCTGATGAACGAGATCCTCAATGGGATCAAAGTCCTCAAGCTGTACGCCTGGGAGCTGGCCTTCCAGGACAAAGTCATGAGCATCAGGCAGGAGGAGCTCAAGGTGCTGAAGAAATCTGCCTACTTGGCAGCTGTAGGCACATTCACGTGGGTGTGCACACCTTTCCTGAATCCATGCCCAGAATCCAGTGCCTCTTTCCTTTCCAGGATTACTTTCTGGTGGATTACAGGGATGATGGTGCACGGCTACCGCCAGCCCCTGGAGAGCAGTGACCTCTGGTCATTGAATAAGGAGGACACATCAGAAGAAGTGGTACCTGTGCTGGTGAATAACTGGAAGAAGGAATGTGATAAGTCAAGGAAGCAGCCTGTACGGATTGTGTATGCCCCTCCCAAAGATCCCAGCAAGCCTAAGGGAAGTTCCCAGTTGGATGTGAATGAGGAGGTGGAGGCACTGATTGTCAAGTCACCCCACAAGGATCGGGAGCCCTCTCTGTTCAAGGTGTTATACAAGACTTTTGGTCCCTACTTCCTCATGAGCTTCCTGTACAAGGCCCTTCATGACCTGATGATGTTTGCCGGCCCCAAGATCTTGGAATTGATTATCAACTTCGTGAATGACAGGGAGGCTCCCGACTGGCAGGGCTACTTTTACACAGCACTGCTGTTTGTCAGCGCCTGTCTGCAGACACTGGCACTCCACCAGTACTTTCATATCTGCTTCGTCAGTGGCATGCGCATCAAGACTGCTGTGGTGGGCGCTGTCTATCGTAAGGCTCTTTTGATCACCAATGCAGCTAGAAAATCTTCCACGGTCGGAGAGATTGTCAACCTCATGTCCGTGGATGCTCAGCGCTTCATGGACTTGGCCACGTACATTAACATGATCTGGTCAGCCCCTCTGCAAGTCATCCTAGCCCTCTACTTCCTGTGGCTGAGCCTGGGCCCTTCTGTGCTGGCTGGAGTGGCTGTGATGATTCTCATGGTACCCTTAAATGCTGTGATGGCCATGAAGACCAAGACCTACCAGGTGGCACACATGAAGAGCAAAGACAACCGAATCAAGCTGATGAACGAGATCCTCAATGGGATCAAAGTCCTCAAGCTGTACGCCTGGGAGCTGGCCTTCCAGGACAAAGTCATGAGCATCAGGCAGGAGGAGCTCAAGGTGCTGAAGAAATCTGCCTACTTGGCAGCTGTAGGCACATTCACGTGGGTGTGCACACCTTTCCTG
Peptide sequence:
MMVHGYRQPLESSDLWSLNKEDTSEEVVPVLVNNWKKECDKSRKQPVRIVYAPPKDPSKPKGSSQLDVNEEVEALIVKSPHKDREPSLFKVLYKTFGPYFLMSFLYKALHDLMMFAGPKILELIINFVNDREAPDWQGYFYTALLFVSACLQTLALHQYFHICFVSGMRIKTAVVGAVYRKALLITNAARKSSTVGEIVNLMSVDAQRFMDLATYINMIWSAPLQVILALYFLWLSLGPSVLAGVAVMILMVPLNAVMAMKTKTYQVAHMKSKDNRIKLMNEILNGIKVLKLYAWELAFQDKVMSIRQEELKVLKKSAYLAAVGTFTWVCTPFLNPCPESSASFLSRITFWWITGMMVHGYRQPLESSDLWSLNKEDTSEEVVPVLVNNWKKECDKSRKQPVRIVYAPPKDPSKPKGSSQLDVNEEVEALIVKSPHKDREPSLFKVLYKTFGPYFLMSFLYKALHDLMMFAGPKILELIINFVNDREAPDWQGYFYTALLFVSACLQTLALHQYFHICFVSGMRIKTAVVGAVYRKALLITNAARKSSTVGEIVNLMSVDAQRFMDLATYINMIWSAPLQVILALYFLWLSLGPSVLAGVAVMILMVPLNAVMAMKTKTYQVAHMKSKDNRIKLMNEILNGIKVLKLYAWELAFQDKVMSIRQEELKVLKKSAYLAAVGTFTWVCTPFL
IRESfinder result
IRESfinder score
0.440996396
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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