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mmu_circElavl2_439
Basic information of circular RNA
PanCircBase ID:
mmu_circElavl2_439
mm39_Chr. Position ID:
chr4|91169450|91199900|-
Gene name:
Elavl2
Transcript:
ENSMUST00000107118.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
4,3,2
Exon/intron offsets:
0,27397,30359
Genomic length:
30450
Exon/intron sizes in nt:
104,244,91
Flanking exon/introns:
chr4:91152382-91169450|chr4:91199900-91260136
Splice length:
439
Other database IDs:
circBase: mmu_circ_0011854, CIRCpedia: MMU_CIRCpedia_34034, circAtlas: mmu-Elavl2_0002
circBase: hsa_circ_0138515, circAtlas: hsa-ELAVL2_0002, CIRCpedia: HSA_CIRCpedia_118182
Human Ortholog IDs:
Mature spliced Sequence:
ACGGCAACTCCAAACTAACATGGCAGTCAGACTGTGTGATGTGGCTTCTCTGCTTAGAAGCGGTTCGTGGGCAGCAGAGCCTTGGACCGGGCAGGTAATTGCTGCCATGGAAACACAACTGTCTAATGGGCCAACTTGCAATAACACAGCCAATGGTCCAACCACTGTAAACAACAACTGCTCCTCACCAGTTGACTCCGGGAACACAGAGGACAGCAAGACCAACCTAATAGTCAACTACCTTCCTCAGAACATGACACAGGAAGAACTAAAGAGTCTTTTTGGGAGCATTGGCGAGATAGAGTCCTGTAAGCTTGTAAGAGACAAAATAACAGGGCAGAGCTTGGGTTACGGATTTGTGAACTACATTGACCCCAAGGATGCAGAGAAAGCTATCAACACTCTGAATGGATTGAGACTTCAAACCAAAACAATAAAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTGACCCCAAGGATGCAGAG
59.67
AATTACCTGCCCGGTCCAAG
60.03
171
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACATTGACCCCAAGGATGCA
59.59
AATTACCTGCCCGGTCCAAG
60.03
174
PCR template sequence:
GAGCTTGGGTTACGGATTTGTGAACTACATTGACCCCAAGGATGCAGAGAAAGCTATCAACACTCTGAATGGATTGAGACTTCAAACCAAAACAATAAAAACGGCAACTCCAAACTAACATGGCAGTCAGACTGTGTGATGTGGCTTCTCTGCTTAGAAGCGGTTCGTGGGCAGCAGAGCCTTGGACCGGGCAGGTAATT
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-140-5p(1), mmu-let-7a-5p(1), mmu-miR-196a-5p(1), mmu-miR-132-3p(1), mmu-miR-431-5p(1), mmu-miR-362-5p(1), mmu-miR-350-3p(1), mmu-miR-323-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CAAAACAATAAAAACGGCAACTCCAA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCELAVL2_439_ORF_1
0.9355
0.120359266
0.532181079
438
ORF sequence:
ATGGCAGTCAGACTGTGTGATGTGGCTTCTCTGCTTAGAAGCGGTTCGTGGGCAGCAGAGCCTTGGACCGGGCAGGTAATTGCTGCCATGGAAACACAACTGTCTAATGGGCCAACTTGCAATAACACAGCCAATGGTCCAACCACTGTAAACAACAACTGCTCCTCACCAGTTGACTCCGGGAACACAGAGGACAGCAAGACCAACCTAATAGTCAACTACCTTCCTCAGAACATGACACAGGAAGAACTAAAGAGTCTTTTTGGGAGCATTGGCGAGATAGAGTCCTGTAAGCTTGTAAGAGACAAAATAACAGGGCAGAGCTTGGGTTACGGATTTGTGAACTACATTGACCCCAAGGATGCAGAGAAAGCTATCAACACTCTGAATGGATTGAGACTTCAAACCAAAACAATAAAAACGGCAACTCCAAACTAA
Peptide sequence:
MAVRLCDVASLLRSGSWAAEPWTGQVIAAMETQLSNGPTCNNTANGPTTVNNNCSSPVDSGNTEDSKTNLIVNYLPQNMTQEELKSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNGLRLQTKTIKTATPN
IRESfinder result
IRESfinder score
0.550687294
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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