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mmu_circOcln_790
Basic information of circular RNA
PanCircBase ID:
mmu_circOcln_790
mm39_Chr. Position ID:
chr13|100675768|100677692|-
Gene name:
Ocln
Transcript:
ENSMUST00000069756.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
3,2
Exon/intron offsets:
0,1807
Genomic length:
1924
Exon/intron sizes in nt:
6,73,117
Flanking exon/introns:
chr13:100671632-100675768|chr13:100677692-100688894
Splice length:
790
Other database IDs:
circBase: mmu_circ_0004388, CIRCpedia: MMU_CIRCpedia_189, circAtlas: mmu-Ocln_0003
circAtlas: hsa-OCLN_0001, CIRCpedia: HSA_CIRCpedia_153571
Human Ortholog IDs:
Mature spliced Sequence:
GTTCGCTTATCTTGGGAGCCTGGACATTTTGCTCATCATAAAGATTAGGTGACCAGTGACATCAGCCATGTCCGTGAGGCCTTTTGAAAGTCCACCTCCTTACAGACCTGATGAATTCAAACCCAATCATTATGCACCAAGCAATGACATGTATGGCGGAGAGATGCATGTCCGGCCGATGCTCTCTCAGCCAGCGTACTCTTTTTATCCGGAAGATGAAATTCTTCACTTCTACAAATGGACGTCGCCCCCAGGGGTGATCCGGATCCTGTCTATGCTCATTATTGTGATGTGCATCGCCATATTTGCCTGTGTGGCTTCCACACTTGCTTGGGACAGAGGCTATGGGACAGGGCTCTTTGGAGGAAGCCTAAACTACCCTTATAGTGGCTTTGGCTACGGAGGTGGCTATGGAGGCGGCTATGGAGGCTATGGCTATGGCTATGGCGGATATACAGACCCAAGAGCAGCCAAAGGCTTCCTGTTGGCCATGGCAGCCTTCTGCTTCATCGCTTCCTTAGTAATATTTGTGACCAGTGTTATAAGATCTGGAATGTCCAGGACAAGAAGATATTACTTGATCGTGATCATAGTCAGCGCTATCCTGGGCATCATGGTGTTTATTGCCACGATCGTGTACATAATGGGAGTGAACCCGACGGCCCAGGCTTCTGGATCTATGTACGGCTCACAGATATATATGATCTGCAACCAGTTTTATACTCCTGGAGGTACTGGTCTCTACGTGGATCAATATTTGTATCACTACTGTGTGGTTGATCCCCAGGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACTCCTGGAGGTACTGGTCTC
59.99
TTCAAAAGGCCTCACGGACA
59.82
157
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACTCCTGGAGGTACTGGTCT
58.91
TTCAAAAGGCCTCACGGACA
59.82
157
PCR template sequence:
ACAGATATATATGATCTGCAACCAGTTTTATACTCCTGGAGGTACTGGTCTCTACGTGGATCAATATTTGTATCACTACTGTGTGGTTGATCCCCAGGAGGTTCGCTTATCTTGGGAGCCTGGACATTTTGCTCATCATAAAGATTAGGTGACCAGTGACATCAGCCATGTCCGTGAGGCCTTTTGAAAGTCCACCTCCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-141-3p(1), mmu-miR-26a-5p(1), mmu-miR-339-5p(1), mmu-miR-26b-5p(1), mmu-miR-199b-3p(1), mmu-miR-199a-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGATCCCCAGGAGGTTCGCTTATCTT
siRNA sets
GATAAGCGAACCTCCTGGG,AAGATAAGCGAACCTCCTG,AGATAAGCGAACCTCCTGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCOCLN_790_ORF_1
0.6702
0.161152085
0.899251297
771
ORF sequence:
ATGTCCGTGAGGCCTTTTGAAAGTCCACCTCCTTACAGACCTGATGAATTCAAACCCAATCATTATGCACCAAGCAATGACATGTATGGCGGAGAGATGCATGTCCGGCCGATGCTCTCTCAGCCAGCGTACTCTTTTTATCCGGAAGATGAAATTCTTCACTTCTACAAATGGACGTCGCCCCCAGGGGTGATCCGGATCCTGTCTATGCTCATTATTGTGATGTGCATCGCCATATTTGCCTGTGTGGCTTCCACACTTGCTTGGGACAGAGGCTATGGGACAGGGCTCTTTGGAGGAAGCCTAAACTACCCTTATAGTGGCTTTGGCTACGGAGGTGGCTATGGAGGCGGCTATGGAGGCTATGGCTATGGCTATGGCGGATATACAGACCCAAGAGCAGCCAAAGGCTTCCTGTTGGCCATGGCAGCCTTCTGCTTCATCGCTTCCTTAGTAATATTTGTGACCAGTGTTATAAGATCTGGAATGTCCAGGACAAGAAGATATTACTTGATCGTGATCATAGTCAGCGCTATCCTGGGCATCATGGTGTTTATTGCCACGATCGTGTACATAATGGGAGTGAACCCGACGGCCCAGGCTTCTGGATCTATGTACGGCTCACAGATATATATGATCTGCAACCAGTTTTATACTCCTGGAGGTACTGGTCTCTACGTGGATCAATATTTGTATCACTACTGTGTGGTTGATCCCCAGGAGGTTCGCTTATCTTGGGAGCCTGGACATTTTGCTCATCATAAAGATTAG
Peptide sequence:
MSVRPFESPPPYRPDEFKPNHYAPSNDMYGGEMHVRPMLSQPAYSFYPEDEILHFYKWTSPPGVIRILSMLIIVMCIAIFACVASTLAWDRGYGTGLFGGSLNYPYSGFGYGGGYGGGYGGYGYGYGGYTDPRAAKGFLLAMAAFCFIASLVIFVTSVIRSGMSRTRRYYLIVIIVSAILGIMVFIATIVYIMGVNPTAQASGSMYGSQIYMICNQFYTPGGTGLYVDQYLYHYCVVDPQEVRLSWEPGHFAHHKD
IRESfinder result
IRESfinder score
0.342769846
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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