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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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