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mmu_circRab11fip3_958
Basic information of circular RNA
PanCircBase ID:
mmu_circRab11fip3_958
mm39_Chr. Position ID:
chr17|26213159|26243440|-
Gene name:
Rab11fip3
Transcript:
ENSMUST00000122103.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
10,9,8,7,6,5,4,3
Exon/intron offsets:
0,3743,10365,14669,17811,19588,21758,30189
Genomic length:
30281
Exon/intron sizes in nt:
141,104,94,36,135,144,212,92
Flanking exon/introns:
chr17:26211637-26213159|chr17:26243440-26255562
Splice length:
958
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
ATCCTGATGGCCAGTTGTACAGCGTGGAGCCTGTCCAAGATGAAGAGACCCCTGCCTGTGCCGATGAGTTTGACGACTTTGTCACCTATGAGGCCAACGAGGTGACAGACAGTGCATATATGGGGTCTGAGAGCACCTACAGTGAGTGTGAGACCTTCACAGATGAGGACACCAGCACCCTGGTGCACCCCGAGCTGCAGCCTGAAGGGGACGTGGACAGTGCTGGTGGCTCAGGGGTGCCCTCTGAGTGCCTGGACACCATGGAGGAGCCTGACCATGGTGCATTGCTGCTGCTCCCAGGCAGATCCCGCCCCCACAGCCAAGCTGTCGTCATGGTGATTGGCAGTGAGGAACATTTTGAAGATTATGGTGAGGGCAATGAGGCAGAACTATCCCCGGAGACCCTCTGCGATGGGGACGGCGAGGACCCTGCTTTTCTCACCCCCAGCTCCAACCCTCTTGCCTCAAAGCTGTGCGACGTCCTCACTGACGAGGCCTTTGAGTTTTACTGTAGCCAGTGCCATAAACAGATCAACCGCCTTGAGGATCTGTCTGCCCGCCTGACTGATCTTGAGATGAATAGCCCAGCCAAGCGGCTCTCCAGCAGGAAGGTGGCAAGGTATCTGCACCAGTCGGGGACCCTGACTATGGAGGCCCTGGAGGACCCTCCCCCAGAGCCTGTGGAGTGCCCAGAGGAGGACATTGCAGACAAGGTCATCTTCCTAGAGAGACGGGTGTCAGAGCTGGAGAAGGACAGTGCAGCTGCTGGCGAGCAGCATGGCAGGCTGAGGCAAGAAAACCTCCAGCTGGTGCACAGAGCCAATGCCTTGGAAGAGCAGCTGAAGGAACAGGAGTTCAGAGCCCAAGAGAAGGTCCTAGAAGAAACCAGGAAGCAGAAGGAACTTCTGTGCAAGATGGAGCGTGAGAAGAGCATTGAGATCGAGAACCTGCAGGCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTCTGTGCAAGATGGAGCGT
59.96
CGTTGGCCTCATAGGTGACA
59.75
154
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GATGGAGCGTGAGAAGAGCA
59.83
CGTTGGCCTCATAGGTGACA
59.75
144
PCR template sequence:
GAGCCCAAGAGAAGGTCCTAGAAGAAACCAGGAAGCAGAAGGAACTTCTGTGCAAGATGGAGCGTGAGAAGAGCATTGAGATCGAGAACCTGCAGGCCAGATCCTGATGGCCAGTTGTACAGCGTGGAGCCTGTCCAAGATGAAGAGACCCCTGCCTGTGCCGATGAGTTTGACGACTTTGTCACCTATGAGGCCAACGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
15
Interacting miRNAs (#binding sites)
mmu-miR-326-3p(2), mmu-miR-15a-5p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-125b-5p(1), mmu-miR-138-5p(1), mmu-miR-125a-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-501-3p(1), mmu-miR-370-3p(1), mmu-miR-183-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-207(1), mmu-miR-1904(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ACCTGCAGGCCAGATCCTGATGGCCA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRAB11FIP3_958_ORF_1
1.2646
0.4683137
0.993840409
846
ORF sequence:
ATGGGGTCTGAGAGCACCTACAGTGAGTGTGAGACCTTCACAGATGAGGACACCAGCACCCTGGTGCACCCCGAGCTGCAGCCTGAAGGGGACGTGGACAGTGCTGGTGGCTCAGGGGTGCCCTCTGAGTGCCTGGACACCATGGAGGAGCCTGACCATGGTGCATTGCTGCTGCTCCCAGGCAGATCCCGCCCCCACAGCCAAGCTGTCGTCATGGTGATTGGCAGTGAGGAACATTTTGAAGATTATGGTGAGGGCAATGAGGCAGAACTATCCCCGGAGACCCTCTGCGATGGGGACGGCGAGGACCCTGCTTTTCTCACCCCCAGCTCCAACCCTCTTGCCTCAAAGCTGTGCGACGTCCTCACTGACGAGGCCTTTGAGTTTTACTGTAGCCAGTGCCATAAACAGATCAACCGCCTTGAGGATCTGTCTGCCCGCCTGACTGATCTTGAGATGAATAGCCCAGCCAAGCGGCTCTCCAGCAGGAAGGTGGCAAGGTATCTGCACCAGTCGGGGACCCTGACTATGGAGGCCCTGGAGGACCCTCCCCCAGAGCCTGTGGAGTGCCCAGAGGAGGACATTGCAGACAAGGTCATCTTCCTAGAGAGACGGGTGTCAGAGCTGGAGAAGGACAGTGCAGCTGCTGGCGAGCAGCATGGCAGGCTGAGGCAAGAAAACCTCCAGCTGGTGCACAGAGCCAATGCCTTGGAAGAGCAGCTGAAGGAACAGGAGTTCAGAGCCCAAGAGAAGGTCCTAGAAGAAACCAGGAAGCAGAAGGAACTTCTGTGCAAGATGGAGCGTGAGAAGAGCATTGAGATCGAGAACCTGCAGGCCAGATCCTGA
Peptide sequence:
MGSESTYSECETFTDEDTSTLVHPELQPEGDVDSAGGSGVPSECLDTMEEPDHGALLLLPGRSRPHSQAVVMVIGSEEHFEDYGEGNEAELSPETLCDGDGEDPAFLTPSSNPLASKLCDVLTDEAFEFYCSQCHKQINRLEDLSARLTDLEMNSPAKRLSSRKVARYLHQSGTLTMEALEDPPPEPVECPEEDIADKVIFLERRVSELEKDSAAAGEQHGRLRQENLQLVHRANALEEQLKEQEFRAQEKVLEETRKQKELLCKMEREKSIEIENLQARS
IRESfinder result
IRESfinder score
0.38481706
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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