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mmu_circCelf2_487
Basic information of circular RNA
PanCircBase ID:
mmu_circCelf2_487
mm39_Chr. Position ID:
chr2|6604844|6629530|-
Gene name:
Celf2
Transcript:
ENSMUST00000002176.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
10,9,8,7,6
Exon/intron offsets:
0,3990,7848,15654,24637
Genomic length:
24686
Exon/intron sizes in nt:
64,159,80,135,49
Flanking exon/introns:
chr2:6590919-6604844|chr2:6629530-6668925
Splice length:
487
Other database IDs:
CIRCpedia: MMU_CIRCpedia_226100, circAtlas: mmu-Celf2_0007
circBase: hsa_circ_0092680, circAtlas: hsa-CELF2_0003, CIRCpedia: HSA_CIRCpedia_128766
Human Ortholog IDs:
Mature spliced Sequence:
ATGCATCATCCCATTCAGATGAAACCTGCAGATAGTGAAAAGTCAAACGCTGTGGAAGACAGAAAATTGTTCATAGGAATGGTTTCCAAGAAATGTAACGAGAATGATATCAGAGTGATGTTTTCTCCATTCGGTCAGATAGAAGAATGCCGGATTCTCCGGGGACCTGATGGGCTGAGTCGAGGCTGTGCGTTTGTCACATTTTCTACAAGGGCAATGGCACAGAATGCAATCAAAGCCATGCATCAGTCTCAGACCATGGAGGGCTGCTCTTCACCAATCGTGGTGAAGTTTGCTGACACTCAGAAGGACAAAGAGCAAAGGCGCCTCCAGCAGCAGCTTGCACAGCAGATGCAACAGCTCAACACTGCCACTTGGGGGAACCTAACAGGACTGGGTGGACTTACCCCGCAGTACCTGGCGCTTCTGCAGCAGGCCACCTCCTCCAGCAACCTGGGTGCATTCAGTGGCATTCAGCAAATGGCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTGGACTTACCCCGCAGTAC
60.11
TGTCTTCCACAGCGTTTGACT
60.13
151
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GACTTACCCCGCAGTACCTG
59.82
TGTCTTCCACAGCGTTTGACT
60.13
148
PCR template sequence:
ACAGGACTGGGTGGACTTACCCCGCAGTACCTGGCGCTTCTGCAGCAGGCCACCTCCTCCAGCAACCTGGGTGCATTCAGTGGCATTCAGCAAATGGCTGATGCATCATCCCATTCAGATGAAACCTGCAGATAGTGAAAAGTCAAACGCTGTGGAAGACAGAAAATTGTTCATAGGAATGGTTTCCAAGAAATGTAACG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-135a-5p(1), mmu-miR-34c-5p(1), mmu-miR-34a-5p(1), mmu-miR-24-3p(1), mmu-miR-434-5p(1), mmu-miR-501-3p(1), mmu-miR-370-3p(1), mmu-miR-34b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CAGCAAATGGCTGATGCATCATCCCA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCELF2_487_ORF_1
0.8203
0.218545373
0.715047167
522
ORF sequence:
ATGCATCATCCCATTCAGATGAAACCTGCAGATAGTGAAAAGTCAAACGCTGTGGAAGACAGAAAATTGTTCATAGGAATGGTTTCCAAGAAATGTAACGAGAATGATATCAGAGTGATGTTTTCTCCATTCGGTCAGATAGAAGAATGCCGGATTCTCCGGGGACCTGATGGGCTGAGTCGAGGCTGTGCGTTTGTCACATTTTCTACAAGGGCAATGGCACAGAATGCAATCAAAGCCATGCATCAGTCTCAGACCATGGAGGGCTGCTCTTCACCAATCGTGGTGAAGTTTGCTGACACTCAGAAGGACAAAGAGCAAAGGCGCCTCCAGCAGCAGCTTGCACAGCAGATGCAACAGCTCAACACTGCCACTTGGGGGAACCTAACAGGACTGGGTGGACTTACCCCGCAGTACCTGGCGCTTCTGCAGCAGGCCACCTCCTCCAGCAACCTGGGTGCATTCAGTGGCATTCAGCAAATGGCTGATGCATCATCCCATTCAGATGAAACCTGCAGATAG
Peptide sequence:
MHHPIQMKPADSEKSNAVEDRKLFIGMVSKKCNENDIRVMFSPFGQIEECRILRGPDGLSRGCAFVTFSTRAMAQNAIKAMHQSQTMEGCSSPIVVKFADTQKDKEQRRLQQQLAQQMQQLNTATWGNLTGLGGLTPQYLALLQQATSSSNLGAFSGIQQMADASSHSDETCR
IRESfinder result
IRESfinder score
0.360020356
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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