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mmu_circArl14ep_487
Basic information of circular RNA
PanCircBase ID:
mmu_circArl14ep_487
mm39_Chr. Position ID:
chr2|106799416|106799903|-
Gene name:
Arl14ep
Transcript:
ENSMUST00000028536.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
2
Exon/intron offsets:
0
Genomic length:
487
Exon/intron sizes in nt:
487
Flanking exon/introns:
chr2:106797572-106799416|chr2:106799903-106804616
Splice length:
487
Other database IDs:
circAtlas: mmu-Arl14ep_0004
circAtlas: hsa-ARL14EP_0003, CIRCpedia: HSA_CIRCpedia_73666
Human Ortholog IDs:
Mature spliced Sequence:
GTTGACCTATCAAAGAGATTTCTAGACAAAATAAAAGAGGGGGAAATTGATAGAATCAAGGACGATGGATCCGTGTTCAGTTGGAGTCCAGCTTCGTACCACACACGACTGCCATAAAACCTTCTATACTCGGCACACAGGTTTCAAGACATTGAAAGAATTGTCATCAAATGACATGCTTTTACTTCAGCTTAGAACTGGAATGACACTTTCTGGGAATAATACAATTTGTCTCCATCACGTAAAAATTTATATTGACAGATTTGAAGATTTGCAGAAGTCGTGTTGTGACCCATTTAACATACACAAGAAGCTAGCCAAAAAGAACCTGCACGTCATTGACTTAGATGATGCCACTTTTCTGAGCGCCAAGTTTGGAAGACAGCTTGTACCTGGTTGGAAGCTTTGCCCCAAATGTACCCAGATCATCAATGGAAGTGTGGACGTTGATTCAGATGACCGCCAGAGACGGAAACCCGACTCAGAT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTTTGCCCCAAATGTACCC
59.75
TGGACTCCAACTGAACACGG
59.89
175
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCTTTGCCCCAAATGTACCC
59.75
TGAACACGGATCCATCGTCC
59.83
164
PCR template sequence:
TGTACCTGGTTGGAAGCTTTGCCCCAAATGTACCCAGATCATCAATGGAAGTGTGGACGTTGATTCAGATGACCGCCAGAGACGGAAACCCGACTCAGATGTTGACCTATCAAAGAGATTTCTAGACAAAATAAAAGAGGGGGAAATTGATAGAATCAAGGACGATGGATCCGTGTTCAGTTGGAGTCCAGCTTCGTACC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-127-3p(1), mmu-miR-297a-5p(1), mmu-miR-384-3p(1), mmu-miR-669d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ACCCGACTCAGATGTTGACCTATCAA
siRNA sets
TTGATAGGTCAACATCTGA, TGATAGGTCAACATCTGAG, GATAGGTCAACATCTGAGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARL14EP_487_ORF_1
0.6493
0.076469256
0.537684602
540
ORF sequence:
ATGGATCCGTGTTCAGTTGGAGTCCAGCTTCGTACCACACACGACTGCCATAAAACCTTCTATACTCGGCACACAGGTTTCAAGACATTGAAAGAATTGTCATCAAATGACATGCTTTTACTTCAGCTTAGAACTGGAATGACACTTTCTGGGAATAATACAATTTGTCTCCATCACGTAAAAATTTATATTGACAGATTTGAAGATTTGCAGAAGTCGTGTTGTGACCCATTTAACATACACAAGAAGCTAGCCAAAAAGAACCTGCACGTCATTGACTTAGATGATGCCACTTTTCTGAGCGCCAAGTTTGGAAGACAGCTTGTACCTGGTTGGAAGCTTTGCCCCAAATGTACCCAGATCATCAATGGAAGTGTGGACGTTGATTCAGATGACCGCCAGAGACGGAAACCCGACTCAGATGTTGACCTATCAAAGAGATTTCTAGACAAAATAAAAGAGGGGGAAATTGATAGAATCAAGGACGATGGATCCGTGTTCAGTTGGAGTCCAGCTTCGTACCACACACGACTGCCATAA
Peptide sequence:
MDPCSVGVQLRTTHDCHKTFYTRHTGFKTLKELSSNDMLLLQLRTGMTLSGNNTICLHHVKIYIDRFEDLQKSCCDPFNIHKKLAKKNLHVIDLDDATFLSAKFGRQLVPGWKLCPKCTQIINGSVDVDSDDRQRRKPDSDVDLSKRFLDKIKEGEIDRIKDDGSVFSWSPASYHTRLP
IRESfinder result
IRESfinder score
0.55199025
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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