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mmu_ciLtbr_1478
Basic information of circular RNA
PanCircBase ID:
mmu_ciLtbr_1478
mm39_Chr. Position ID:
chr6|125287527|125289005|-
Gene name:
Ltbr
Transcript:
ENSMUST00000032489.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
6
Exon/intron offsets:
0
Genomic length:
1478
Exon/intron sizes in nt:
1478
Flanking exon/introns:
chr6:125286529-125289005
Splice length:
1478
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGACACCGGGCTGAGGAACACAAGGCAGGGTCGGTCTGGGAAGATGCCTCAGCCCCCCTCATCCACAGAAACAGGGAACAGTGCATCTTTCTTCCCAGGGTTAGACAAAGTCAGAAACATTTCTTCTGAAGAAATCAGAAGGAGGTAGCGTGTAGTTCCATGGTTAGAACGCTTGCTTGGGATACATAAGACCCTGAGTTTGGACCAAAAGAAAAAAAACGAAAACTTGGAAAGGCAGGTGTGGTGGTGCACCCTTGTAATCCCCAGCGCTTGAAAGGCTGCGGCAGAAGAATCAAGAGTTTGAGGCTAGCCTTGGCTACAGAGTGAGCCTGTCTCCATAGAGGGCCTGGAGATTAGAACATCCCTAGACTCTTTTCTTACACTTTCAAAATTATACATATTATGCCAGGAAACATTCCTGTGCTGTGACGTAATTCTAACCGGCTTCATCACTATGCTTGGATGCGATTCCGTCATAGCCTTCCTTCACTAATTGAATACCTCGTTGTTCACTTACACACATCTGTTGGAGACATGCTCCCCCACTGGGCTCTTTCTAGGTTTTCTTGTTTCTTGGTTTCTGTCTTCGAGGAAACCCACTAGTTTCCCAGCCTGGTGGTTGACTATAAGTTCTTCTGATGACTCTAATCGCTACTAATTGGCAGAATGTAGTAACATTTTTGAGTGACCAGACTTTTGTAATTATAGCTTCCACATCCTGAGAACAACTCTGAACCTCTCAGTGATTCCACTTAAGCTGCCTAATGATTCTATAAACTGGGATTATTCATTCTCACTGATGGGGGGAGAAAGCTGAGATGTTAAATGACTTGCTGGAGATCACGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATGTATGTGTGTGTGTATGTGTGTGTATGTATGTGTGTATATGTGTGTGTGTTTGTGTATGTGTGTGTGTGTGTGTGTGTGTCTGTATGTGTGTGTGTGTAAATCACGTTATTACTGTCTATATCTAGGTCTTCCTTACTTGGGGCTCATTTATAAGGTACACAAGCTATAAAATGTCCTAAGCCTTCACACCAGTTGTGGAAGCACACGCCTGTCACCCCTACATTTGGGAGGTGTAGCCAGGACCCAGGCTGGGCTGCATAAGACCCTGTCTCTGAGAGAAGGAGGAGAGAAAGAGGGAATGAATGAAAATTCAGCTAAAATTCCCCCACTGAACATAGAACATTTCCACTCTTACTACCTTGGTCTATCCCTTCCAACACATTCCCCGTGCATTTCTATTCATATAATCTTCTAGACTAAAAGTGGGGTGATAGAAGTGTTTTATACTTGACTTTTTTGATAAGGAGAAATTGGCAGTAGATGCTGAACCACTGAGATGATATACAAGCTTCCCTTACACACACACACACACACACACACACACACACACACACACACACATTCCCTTATATACTAGTATATTCCCTT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CACACACACACACACACACA
59.13
TGTTTCTGTGGATGAGGGGG
59.3
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CACACACACACACACACACA
59.13
TGTTTCTGTGGATGAGGGGG
59.3
143
PCR template sequence:
CCACTGAGATGATATACAAGCTTCCCTTACACACACACACACACACACACACACACACACACACACACACACATTCCCTTATATACTAGTATATTCCCTTGTAAGACACCGGGCTGAGGAACACAAGGCAGGGTCGGTCTGGGAAGATGCCTCAGCCCCCCTCATCCACAGAAACAGGGAACAGTGCATCTTTCTTCCCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
16
Interacting miRNAs (#binding sites)
mmu-miR-466d-3p(6), mmu-miR-466b-3p(5), mmu-miR-1187(3), mmu-miR-206-3p(2), mmu-miR-690(2), mmu-miR-466a-5p(2), mmu-miR-574-5p(2), mmu-miR-7b-5p(1), mmu-miR-7a-5p(1), mmu-miR-680(1), mmu-miR-466p-5p(1), mmu-miR-190b-5p(1), mmu-miR-335-3p(1), mmu-miR-669d-5p(1), mmu-miR-484(1), mmu-miR-3470b(1)
siRNAs for circular RNA silencing
Junction sequence
AGTATATTCCCTTGTAAGACACCGGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.735586513
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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