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mmu_ciRap1b_995
Basic information of circular RNA
PanCircBase ID:
mmu_ciRap1b_995
mm39_Chr. Position ID:
chr10|117653375|117654370|-
Gene name:
Rap1b
Transcript:
ENSMUST00000064667.9
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
6
Exon/intron offsets:
0
Genomic length:
995
Exon/intron sizes in nt:
995
Flanking exon/introns:
chr10:117653365-117654370
Splice length:
995
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTATGTGCATGTGTACTTAGAATAGCTTCTTAGGCTCAGTGCAGCATCTTAAATTAATGGAGAGGCGGGGAGGTGGCTGAGCCCCGAGGCGCTTACTTACTCTTCTGAGAACCCGGGGTTAGTTCCCAGGACTGACATGGTGACTCATGACCATCTGGAACCCAAGCACCCTCTTCTGATGTCGCTGGGAGCCTGCATGCTCACTGTGCACATAAACTCATGCATGACCCAAACACACACATAAAAATAATAATTTTTTGCCAGATGGTAGTGGCACATGCCTTAAATACCAACATTCAGAAGGCTGAAGTGGGTGGATCTCTGAGTTGGAGGCCAGCCTGGCCTACCAAGCAAATTCCAAATAGCTGGGGCTATACTGAAAAACCTTGTCTCCAAAAATTAATTAATTAATTTTTAAAGAAAAGTATTACAAAGAACTCTAAGTTAATATATGCTCTTATAGGCCAAAAAAAAAAAAAAAACTTGTCTGGCATATGCATGCATATGAGTAACAATATGTTGGTTTAAGGGAAAGTTAGGCAGAAGGCCAGTTTTAAAAACCATTAATTTCATTGAGTATTTGAGAGTTTATATAAAGGCTAAAACTCAGAAAGATAGTGTGGTCCTTGAAGTAGGTGACGCCCCATAGATAGCAAGGCACAAAAGACGCGCAAAGCCAAGCCGTCTGAGACAGTAAAGGGCTTCTTTGTTGTAGGAGAGCTAACTGCATTAAGTAGAATTCTTCAACTCTTACTTTAATAGAAATGGTTTTAATTTTCTCAGAAAACAAAACAAAACCTGGTACTTATAAGAACACTGGCTTTACACTCCTTCTGCAAAAGAAAACGTGGAGATTCCTTTACAGCTGTGGAAATTGCCAGGAGTTTTTGTTTCTCTTTTTCATTTTTGGGTTTTTTGAGTTTGTTTTCCCTCTTTAAAAAAACAAGTGGTGGTGGTAATAATAATAATAGTAATTATAATAATAATAATAAAAT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAAACAAGTGGTGGTGGTAA
55.29
GTAAGTAAGCGCCTCGGGG
60.23
156
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAAAACAAGTGGTGGTGGTA
55.29
GTAAGTAAGCGCCTCGGGG
60.23
157
PCR template sequence:
CTTTTTCATTTTTGGGTTTTTTGAGTTTGTTTTCCCTCTTTAAAAAAACAAGTGGTGGTGGTAATAATAATAATAGTAATTATAATAATAATAATAAAATGTATGTGCATGTGTACTTAGAATAGCTTCTTAGGCTCAGTGCAGCATCTTAAATTAATGGAGAGGCGGGGAGGTGGCTGAGCCCCGAGGCGCTTACTTAC
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-199a-5p(1), mmu-miR-122-5p(1), mmu-miR-128-3p(1), mmu-miR-136-5p(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-466p-5p(1), mmu-miR-339-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATAATAATAAAATGTATGTGCATGTG
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
0.809145242
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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