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mmu_circEsf1_1012
Basic information of circular RNA
PanCircBase ID:
mmu_circEsf1_1012
mm39_Chr. Position ID:
chr2|139965450|140000552|-
Gene name:
Esf1
Transcript:
ENSMUST00000046030.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
13,12,11,10,9,8,7,6
Exon/intron offsets:
0,1397,5669,15402,25222,31263,33524,34949
Genomic length:
35102
Exon/intron sizes in nt:
1,47,77,88,12,21,62,14,00,00,000
Flanking exon/introns:
chr2:139962825-139965450|chr2:140000552-140001613
Splice length:
1012
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GGCCTCTAGAGAGAAGCTAAGAGACTACCAGTTCAAACGATTGAAATACTATTATGCAGTAGCGGAGTGTGATTCTCCTGAAACAGCAAGTAAGATTTATGAAGATTGTGATGGCCTGGAATTTGAAAGCAGTTGTTCTTTCATAGACTTAAGATTTATACCAGATGATATTACCTTTGATGATGAGCCCAAGGATGTGGCCTTAGAAGTTGATTTAACGGCATATAAGCCAAAGTATTTCACATCTGCTGCAATGGGAACATCAACGGTGGAGATCACTTGGGATGAGACTGACCATGAAAGAATCACGACGCTTAACAGGAAGTTTAAAAAGGATGAGCTTTTGGACATGGACTTTCAAGCCTACTTGGCTTCCTCTAGCGAGGATGAAGAGGAGGTAGAAGAAGCACCAGAAGGTGAAGAAGGAGTCAACATAGGAGAAGATGGGAAGACAAAGAAAAGTCAGAAGGATGATGAAGAACAAATTGCTAAATACAGACAGCTCTTGCAGGTTATTCAAGAAAAAGAAAAGAAAGGAAAAGAAAATGATATGGAAATGGAAATCAAATGGGTTCCAGGTCTTAAGGAGAGTGCAGAAGAGATGGTCAAAAACAAGTTGGAGGGAAAGGATAAACTGACCCCTTGGGAACAGTTTTTAGAGAAGAAGAAAGAGAAGAAAAGACTGAAAAAGAAACAGAAGGCTCTTGCTGAAGAAGACAGTGAAGATGAGCTTCCTTCTGATGTTGATTTCAATGATCCCTACTTTGCTGAAGAAGTAAAAAAAATAGGTATAAAGAAAAAATCAATGAAATCTGCAAAAGACAGCGCATCTTCAGAGGAAGAAACTGATCTGGAAAAACAAAAGGCTGAGATGGCTTTACTTGTAATGGATGAGGAAGAGGACAGCAAGAAACACTTCAATTATGACAAGATTGTGGAGCACCAGAATCTGAGCAAAAAGAAGAAGAAACAGCTCATGAAAAAGAAGGAGTTAGTTGAGGATGACTTTGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGAGCACCAGAATCTGAGCA
59.75
AATCACACTCCGCTACTGCA
59.39
150
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGAGCACCAGAATCTGAGC
59.75
AATCACACTCCGCTACTGCA
59.39
151
PCR template sequence:
ACACTTCAATTATGACAAGATTGTGGAGCACCAGAATCTGAGCAAAAAGAAGAAGAAACAGCTCATGAAAAAGAAGGAGTTAGTTGAGGATGACTTTGAGGGCCTCTAGAGAGAAGCTAAGAGACTACCAGTTCAAACGATTGAAATACTATTATGCAGTAGCGGAGTGTGATTCTCCTGAAACAGCAAGTAAGATTTAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-335-3p(2), mmu-miR-223-3p(1), mmu-miR-196a-5p(1), mmu-miR-129-5p(1), mmu-miR-207(1), mmu-miR-452-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GGATGACTTTGAGGGCCTCTAGAGAG
siRNA sets
GAGGCCCTCAAAGTCATCC, CTAGAGGCCCTCAAAGTCA, TAGAGGCCCTCAAAGTCAT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCESF1_1012_ORF_1
1.089
0.288117009
0.995008567
1023
ORF sequence:
ATGACTTTGAGGGCCTCTAGAGAGAAGCTAAGAGACTACCAGTTCAAACGATTGAAATACTATTATGCAGTAGCGGAGTGTGATTCTCCTGAAACAGCAAGTAAGATTTATGAAGATTGTGATGGCCTGGAATTTGAAAGCAGTTGTTCTTTCATAGACTTAAGATTTATACCAGATGATATTACCTTTGATGATGAGCCCAAGGATGTGGCCTTAGAAGTTGATTTAACGGCATATAAGCCAAAGTATTTCACATCTGCTGCAATGGGAACATCAACGGTGGAGATCACTTGGGATGAGACTGACCATGAAAGAATCACGACGCTTAACAGGAAGTTTAAAAAGGATGAGCTTTTGGACATGGACTTTCAAGCCTACTTGGCTTCCTCTAGCGAGGATGAAGAGGAGGTAGAAGAAGCACCAGAAGGTGAAGAAGGAGTCAACATAGGAGAAGATGGGAAGACAAAGAAAAGTCAGAAGGATGATGAAGAACAAATTGCTAAATACAGACAGCTCTTGCAGGTTATTCAAGAAAAAGAAAAGAAAGGAAAAGAAAATGATATGGAAATGGAAATCAAATGGGTTCCAGGTCTTAAGGAGAGTGCAGAAGAGATGGTCAAAAACAAGTTGGAGGGAAAGGATAAACTGACCCCTTGGGAACAGTTTTTAGAGAAGAAGAAAGAGAAGAAAAGACTGAAAAAGAAACAGAAGGCTCTTGCTGAAGAAGACAGTGAAGATGAGCTTCCTTCTGATGTTGATTTCAATGATCCCTACTTTGCTGAAGAAGTAAAAAAAATAGGTATAAAGAAAAAATCAATGAAATCTGCAAAAGACAGCGCATCTTCAGAGGAAGAAACTGATCTGGAAAAACAAAAGGCTGAGATGGCTTTACTTGTAATGGATGAGGAAGAGGACAGCAAGAAACACTTCAATTATGACAAGATTGTGGAGCACCAGAATCTGAGCAAAAAGAAGAAGAAACAGCTCATGAAAAAGAAGGAGTTAGTTGAGGATGACTTTGAG
Peptide sequence:
MTLRASREKLRDYQFKRLKYYYAVAECDSPETASKIYEDCDGLEFESSCSFIDLRFIPDDITFDDEPKDVALEVDLTAYKPKYFTSAAMGTSTVEITWDETDHERITTLNRKFKKDELLDMDFQAYLASSSEDEEEVEEAPEGEEGVNIGEDGKTKKSQKDDEEQIAKYRQLLQVIQEKEKKGKENDMEMEIKWVPGLKESAEEMVKNKLEGKDKLTPWEQFLEKKKEKKRLKKKQKALAEEDSEDELPSDVDFNDPYFAEEVKKIGIKKKSMKSAKDSASSEEETDLEKQKAEMALLVMDEEEDSKKHFNYDKIVEHQNLSKKKKKQLMKKKELVEDDFE
IRESfinder result
IRESfinder score
0.456686438
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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