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mmu_circEpb41l5_893
Basic information of circular RNA
PanCircBase ID:
mmu_circEpb41l5_893
mm39_Chr. Position ID:
chr1|119532957|119551698|-
Gene name:
Epb41l5
Transcript:
ENSMUST00000052404.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
11
Exon/intron indexes:
14,13,12,11,10,9,8,7,6,5,4
Exon/intron offsets:
0,2759,3889,10118,11173,12136,12326,14939,15447,16658,18698
Genomic length:
18741
Exon/intron sizes in nt:
28,107,170,70,89,88,121,53,45,79,43
Flanking exon/introns:
chr1:119527967-119532957|chr1:119551698-119561274
Splice length:
893
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
CATTGGTTGGATGGTACAAAAAGCATCAAAAAGCAAGTAAAAATTGGTTCACCCTATTGTCTTCATCTTCGAGTTAAGTTTTATTCCTCGGAACCAAATAATCTTCGTGAGGAGCTAACCCGGTATTTATTTGTTCTTCAGCTAAAACAAGATATTCTCAGTGGGAAGTTAGAGTGTCCCTTTGATACAGCAGTTCAGTTGGCAGCTTATAATCTGCAAGCTGAACTTGGCGACTATGATCTTGCTGAACATAGTCCTGAACTGGTCTCTGAGTTCAGGTTTGTGCCCATCCAGACTGAAGAGATGGAACTGGCTATTTTTGAGAAATGGAAGGAATACAGAGGTCAGACACCAGCACAAGCAGAAACCAATTACCTGAATAAAGCCAAATGGCTAGAAATGTATGGTGTTGATATGCACGTGGTCAAGGCTAGAGATGGCAATGACTATAGTTTGGGACTGACTCCAACAGGAGTCCTTGTTTTTGAAGGAGAGACCAAAATTGGCTTGTTTTTCTGGCCCAAGATAACCAGATTGGATTTTAAGAAGAATAAGTTAACTCTAGTGGTTGTGGAAGATGATGATCAGGGCAAAGAACAAGAGCATACCTTTGTCTTTAGATTGGATCACCCTAAAGCCTGCAAACACTTATGGAAATGTGCTGTGGAGCACCATGCCTTCTTCCGCCTCCGAGGACCTGTCCAAAAGAGTTCCCATCGATCAGGATTCATTCGACTAGGATCCCGATTTAGATACAGTGGAAAAACAGAATATCAGACCACAAAAACTAATAAAGCAAGAAGATCAACCTCCTTTGAAAGAAGGCCTAGCAAGCGGTATTCCCGACGGACGCTGCAAATGAAAGCCAGCACAACACAACCTGAAGATCTTGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GAAGGCCTAGCAAGCGGTAT
59.89
AGATGAAGACAATAGGGTGAACCA
59.46
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGGCCTAGCAAGCGGTATTC
59.89
TCGAAGATGAAGACAATAGGGTGA
59.29
143
PCR template sequence:
AAGCAAGAAGATCAACCTCCTTTGAAAGAAGGCCTAGCAAGCGGTATTCCCGACGGACGCTGCAAATGAAAGCCAGCACAACACAACCTGAAGATCTTGGCATTGGTTGGATGGTACAAAAAGCATCAAAAAGCAAGTAAAAATTGGTTCACCCTATTGTCTTCATCTTCGAGTTAAGTTTTATTCCTCGGAACCAAATA
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-138-5p(1), mmu-miR-22-3p(1), mmu-miR-125b-1-3p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
CTGAAGATCTTGGCATTGGTTGGATG
siRNA sets
CATCCAACCAATGCCAAGA, ATCCAACCAATGCCAAGAT, AACCAATGCCAAGATCTTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCEPB41L5_893_ORF_1
0.632
0.083110945
0.684926085
630
ORF sequence:
ATGGAACTGGCTATTTTTGAGAAATGGAAGGAATACAGAGGTCAGACACCAGCACAAGCAGAAACCAATTACCTGAATAAAGCCAAATGGCTAGAAATGTATGGTGTTGATATGCACGTGGTCAAGGCTAGAGATGGCAATGACTATAGTTTGGGACTGACTCCAACAGGAGTCCTTGTTTTTGAAGGAGAGACCAAAATTGGCTTGTTTTTCTGGCCCAAGATAACCAGATTGGATTTTAAGAAGAATAAGTTAACTCTAGTGGTTGTGGAAGATGATGATCAGGGCAAAGAACAAGAGCATACCTTTGTCTTTAGATTGGATCACCCTAAAGCCTGCAAACACTTATGGAAATGTGCTGTGGAGCACCATGCCTTCTTCCGCCTCCGAGGACCTGTCCAAAAGAGTTCCCATCGATCAGGATTCATTCGACTAGGATCCCGATTTAGATACAGTGGAAAAACAGAATATCAGACCACAAAAACTAATAAAGCAAGAAGATCAACCTCCTTTGAAAGAAGGCCTAGCAAGCGGTATTCCCGACGGACGCTGCAAATGAAAGCCAGCACAACACAACCTGAAGATCTTGGCATTGGTTGGATGGTACAAAAAGCATCAAAAAGCAAGTAA
Peptide sequence:
MELAIFEKWKEYRGQTPAQAETNYLNKAKWLEMYGVDMHVVKARDGNDYSLGLTPTGVLVFEGETKIGLFFWPKITRLDFKKNKLTLVVVEDDDQGKEQEHTFVFRLDHPKACKHLWKCAVEHHAFFRLRGPVQKSSHRSGFIRLGSRFRYSGKTEYQTTKTNKARRSTSFERRPSKRYSRRTLQMKASTTQPEDLGIGWMVQKASKSK
IRESfinder result
IRESfinder score
0.620453247
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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