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mmu_circApi5_786
Basic information of circular RNA
PanCircBase ID:
mmu_circApi5_786
mm39_Chr. Position ID:
chr2|94255318|94260185|-
Gene name:
Api5
Transcript:
ENSMUST00000028617.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
7,6,5,4,3,2
Exon/intron offsets:
0,617,1959,2538,3072,4705
Genomic length:
4867
Exon/intron sizes in nt:
1,05,20,71,52,66,94,160
Flanking exon/introns:
chr2:94253846-94255318|chr2:94260185-94268268
Splice length:
786
Other database IDs:
CIRCpedia: MMU_CIRCpedia_34829, circAtlas: mmu-Api5_0014
Human Ortholog IDs:
Mature spliced Sequence:
CATAAAGATGCCTACCAAGTGATACTGGATGGCGTGAAAGGCGGCACCAAGGAAAAGCGATTAGCAGCTCAGTTTATACCAAAATTCTTTAAGCATTTTCCAGAGCTGGCTGATTCTGCTATCAATGCACAGTTAGACCTCTGTGAGGATGAAGATGTGTCAATACGACGTCAAGCAATTAAAGAGCTGCCTCAGTTTGCCACAGGAGAAAACCTTCCTAGAGTAGCAGATATACTGACCCAGCTTCTGCAGACAGATGACTCTGCAGAATTTAACCTGGTGAACAATGCTCTGCTAAGTATATTTAAGATGGATGCAAAAGGAACGTTAGGTGGCTTGTTTAGCCAGATTCTTCAAGGAGAAGACATTGTTAGAGAACGAGCAATTAAATTCCTGTCCACAAAACTCAAGACGCTCCCAGATGAGGTGTTGACTAAGGAAGTGGAGGAACTCATACTCACTGAGTCCAAGAAGGTCCTAGAAGACGTGACTGGTGAAGAGTTTGTTTTGTTCATGAAGATACTGTCTGGGTTGAAAAGCTTACAGACAGTGAGTGGACGACAGCAGCTGGTGGAGCTGGTGGCGGAACAGGCTGACCTGGAGCAGGCCTTCAGCCCCTCAGACCCCGACTGTGTGGACAGACTACTGCAGTGCACGCGGCAGGCTGTGCCTCTCTTCTCCAAAAATGTGCATTCTACAAGATTTGTGACGTATTTCTGTGAGCAAGTTCTCCCTAACCTCAGCACCCTGACCACCCCAGTGGAAGGCCTCGATATACAGCTGGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCTGTGAGCAAGTTCTCCCT
58.28
TGAGCTGCTAATCGCTTTTCC
58.99
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCTGTGAGCAAGTTCTCCCT
58.28
CTGAGCTGCTAATCGCTTTTCC
59.97
143
PCR template sequence:
TGTGCATTCTACAAGATTTGTGACGTATTTCTGTGAGCAAGTTCTCCCTAACCTCAGCACCCTGACCACCCCAGTGGAAGGCCTCGATATACAGCTGGAGCATAAAGATGCCTACCAAGTGATACTGGATGGCGTGAAAGGCGGCACCAAGGAAAAGCGATTAGCAGCTCAGTTTATACCAAAATTCTTTAAGCATTTTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-33-5p(1), mmu-miR-199b-3p(1), mmu-miR-199a-3p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
TATACAGCTGGAGCATAAAGATGCCT
siRNA sets
ATCTTTATGCTCCAGCTGT, CATCTTTATGCTCCAGCTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAPI5_786_ORF_1
1.06
0.286949764
0.99906945
1263
ORF sequence:
ATGGATGCAAAAGGAACGTTAGGTGGCTTGTTTAGCCAGATTCTTCAAGGAGAAGACATTGTTAGAGAACGAGCAATTAAATTCCTGTCCACAAAACTCAAGACGCTCCCAGATGAGGTGTTGACTAAGGAAGTGGAGGAACTCATACTCACTGAGTCCAAGAAGGTCCTAGAAGACGTGACTGGTGAAGAGTTTGTTTTGTTCATGAAGATACTGTCTGGGTTGAAAAGCTTACAGACAGTGAGTGGACGACAGCAGCTGGTGGAGCTGGTGGCGGAACAGGCTGACCTGGAGCAGGCCTTCAGCCCCTCAGACCCCGACTGTGTGGACAGACTACTGCAGTGCACGCGGCAGGCTGTGCCTCTCTTCTCCAAAAATGTGCATTCTACAAGATTTGTGACGTATTTCTGTGAGCAAGTTCTCCCTAACCTCAGCACCCTGACCACCCCAGTGGAAGGCCTCGATATACAGCTGGAGCATAAAGATGCCTACCAAGTGATACTGGATGGCGTGAAAGGCGGCACCAAGGAAAAGCGATTAGCAGCTCAGTTTATACCAAAATTCTTTAAGCATTTTCCAGAGCTGGCTGATTCTGCTATCAATGCACAGTTAGACCTCTGTGAGGATGAAGATGTGTCAATACGACGTCAAGCAATTAAAGAGCTGCCTCAGTTTGCCACAGGAGAAAACCTTCCTAGAGTAGCAGATATACTGACCCAGCTTCTGCAGACAGATGACTCTGCAGAATTTAACCTGGTGAACAATGCTCTGCTAAGTATATTTAAGATGGATGCAAAAGGAACGTTAGGTGGCTTGTTTAGCCAGATTCTTCAAGGAGAAGACATTGTTAGAGAACGAGCAATTAAATTCCTGTCCACAAAACTCAAGACGCTCCCAGATGAGGTGTTGACTAAGGAAGTGGAGGAACTCATACTCACTGAGTCCAAGAAGGTCCTAGAAGACGTGACTGGTGAAGAGTTTGTTTTGTTCATGAAGATACTGTCTGGGTTGAAAAGCTTACAGACAGTGAGTGGACGACAGCAGCTGGTGGAGCTGGTGGCGGAACAGGCTGACCTGGAGCAGGCCTTCAGCCCCTCAGACCCCGACTGTGTGGACAGACTACTGCAGTGCACGCGGCAGGCTGTGCCTCTCTTCTCCAAAAATGTGCATTCTACAAGATTTGTGACGTATTTCTGTGAGCAAGTTCTCCCTAACCTCAGCACCCTGACCACCCCAGTGGAAGGCCTCGATATACAGCTGGAG
Peptide sequence:
MDAKGTLGGLFSQILQGEDIVRERAIKFLSTKLKTLPDEVLTKEVEELILTESKKVLEDVTGEEFVLFMKILSGLKSLQTVSGRQQLVELVAEQADLEQAFSPSDPDCVDRLLQCTRQAVPLFSKNVHSTRFVTYFCEQVLPNLSTLTTPVEGLDIQLEHKDAYQVILDGVKGGTKEKRLAAQFIPKFFKHFPELADSAINAQLDLCEDEDVSIRRQAIKELPQFATGENLPRVADILTQLLQTDDSAEFNLVNNALLSIFKMDAKGTLGGLFSQILQGEDIVRERAIKFLSTKLKTLPDEVLTKEVEELILTESKKVLEDVTGEEFVLFMKILSGLKSLQTVSGRQQLVELVAEQADLEQAFSPSDPDCVDRLLQCTRQAVPLFSKNVHSTRFVTYFCEQVLPNLSTLTTPVEGLDIQLE
IRESfinder result
IRESfinder score
0.537060134
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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