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mmu_circEpb41l2_698
Basic information of circular RNA
PanCircBase ID:
mmu_circEpb41l2_698
mm39_Chr. Position ID:
chr10|25317470|25319852|+
Gene name:
Epb41l2
Transcript:
ENSMUST00000053748.16
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
2,3
Exon/intron offsets:
0,2169
Genomic length:
2382
Exon/intron sizes in nt:
485,213
Flanking exon/introns:
chr10:25235879-25317470|chr10:25319852-25336689
Splice length:
698
Other database IDs:
circBase: mmu_circ_0002128, CIRCpedia: MMU_CIRCpedia_14533, circAtlas: mmu-Epb4_0026
circBase: hsa_circ_0001640, circAtlas: hsa-EPB41L2_0003, CIRCpedia: HSA_CIRCpedia_53531
Human Ortholog IDs:
Mature spliced Sequence:
TGTAAGCGGTAACCATGACTACTGAAGTTGGCTCTGCATCTGAAGTGAAGAAGGGCTCTGACCAGGCTGGAGCAGATGCCTCCAAGGAGAAAGCTAAAGAAGTAGAAAATGAGCAGACTCCAGTATCTGAGCCAGAGGAAGAAAAGGGTTCCCAGCCAGGTCCTCCGGTTGAGAGGCAAAGCACTCCCCGCCTGCGGAAACGAGGGAAGGATCCGTCTGAGAACAGGGGCATCTCTCGATTCATACCCCCGTGGCTTAAGAAGCAGAGGTCTTACAATTTAGTAGTAGCCAAAGATGGAGGAGATAAAAAAGAGCCTACTCAAGCTGACGTGGAAGACCAGATCTTAGGCAAAGAGGAATCCCTTCCTGAAGAAGAGAGTCGGGCCAAGGGTGACGCAGAAGAAATGGCTCAGAGGAAGCACCTGGAGGTTCAGGTGGAGGTCAGGGAAGCAAAACCAGCCTTGAAAAGCAGCGTGGAGACCCAGCCTGCTGAAGAAGTGAGGAAGGACAAGGAGGAAACGATACAAGACACACAGGAAGAGAAACTGGAAGGAGGTGCAGCCAAAAGGGAGACAAAGGAAGTACAGACAAGTGAGCTGAAGGCAGAGGTGGCCTCTCAGAAAGCTACCAAGAAGACCAAGACTGTCCTGGCCAAAGTGACCCTTCTAGATGGCACGGAATACAGCTGTGACCTTGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GACTGTCCTGGCCAAAGTGA
59.89
CTCCTTGGAGGCATCTGCTC
60.18
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGACTGTCCTGGCCAAAGTG
59.89
CTCCTTGGAGGCATCTGCTC
60.18
148
PCR template sequence:
GAAGGCAGAGGTGGCCTCTCAGAAAGCTACCAAGAAGACCAAGACTGTCCTGGCCAAAGTGACCCTTCTAGATGGCACGGAATACAGCTGTGACCTTGAGTGTAAGCGGTAACCATGACTACTGAAGTTGGCTCTGCATCTGAAGTGAAGAAGGGCTCTGACCAGGCTGGAGCAGATGCCTCCAAGGAGAAAGCTAAAGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-326-3p(1), mmu-miR-199b-3p(1), mmu-miR-199a-3p(1), mmu-miR-541-5p(1), mmu-miR-680(1), mmu-miR-673-5p(1), mmu-miR-669d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTGTGACCTTGAGTGTAAGCGGTAAC
siRNA sets
CTTACACTCAAGGTCACAG, TTACCGCTTACACTCAAGG, GTTACCGCTTACACTCAAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCEPB41L2_698_ORF_1
1.0672
0.387192968
0.964922638
696
ORF sequence:
ATGACTACTGAAGTTGGCTCTGCATCTGAAGTGAAGAAGGGCTCTGACCAGGCTGGAGCAGATGCCTCCAAGGAGAAAGCTAAAGAAGTAGAAAATGAGCAGACTCCAGTATCTGAGCCAGAGGAAGAAAAGGGTTCCCAGCCAGGTCCTCCGGTTGAGAGGCAAAGCACTCCCCGCCTGCGGAAACGAGGGAAGGATCCGTCTGAGAACAGGGGCATCTCTCGATTCATACCCCCGTGGCTTAAGAAGCAGAGGTCTTACAATTTAGTAGTAGCCAAAGATGGAGGAGATAAAAAAGAGCCTACTCAAGCTGACGTGGAAGACCAGATCTTAGGCAAAGAGGAATCCCTTCCTGAAGAAGAGAGTCGGGCCAAGGGTGACGCAGAAGAAATGGCTCAGAGGAAGCACCTGGAGGTTCAGGTGGAGGTCAGGGAAGCAAAACCAGCCTTGAAAAGCAGCGTGGAGACCCAGCCTGCTGAAGAAGTGAGGAAGGACAAGGAGGAAACGATACAAGACACACAGGAAGAGAAACTGGAAGGAGGTGCAGCCAAAAGGGAGACAAAGGAAGTACAGACAAGTGAGCTGAAGGCAGAGGTGGCCTCTCAGAAAGCTACCAAGAAGACCAAGACTGTCCTGGCCAAAGTGACCCTTCTAGATGGCACGGAATACAGCTGTGACCTTGAGTGTAAGCGGTAA
Peptide sequence:
MTTEVGSASEVKKGSDQAGADASKEKAKEVENEQTPVSEPEEEKGSQPGPPVERQSTPRLRKRGKDPSENRGISRFIPPWLKKQRSYNLVVAKDGGDKKEPTQADVEDQILGKEESLPEEESRAKGDAEEMAQRKHLEVQVEVREAKPALKSSVETQPAEEVRKDKEETIQDTQEEKLEGGAAKRETKEVQTSELKAEVASQKATKKTKTVLAKVTLLDGTEYSCDLECKR
IRESfinder result
IRESfinder score
0.256169696
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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