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mmu_circApi5_1209
Basic information of circular RNA
PanCircBase ID:
mmu_circApi5_1209
mm39_Chr. Position ID:
chr2|94251330|94260185|-
Gene name:
Api5
Transcript:
ENSMUST00000028617.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
11,10,9,8,7,6,5,4,3,2
Exon/intron offsets:
0,447,1311,2426,3988,4605,5947,6526,7060,8693
Genomic length:
8855
Exon/intron sizes in nt:
57,94,18,29,01,05,20,70,00,00,00,000
Flanking exon/introns:
chr2:94249292-94251330|chr2:94260185-94268268
Splice length:
1209
Other database IDs:
circAtlas: mmu-Api5_0002
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_167031
Human Ortholog IDs:
Mature spliced Sequence:
CATAAAGATGCCTACCAAGTGATACTGGATGGCGTGAAAGGCGGCACCAAGGAAAAGCGATTAGCAGCTCAGTTTATACCAAAATTCTTTAAGCATTTTCCAGAGCTGGCTGATTCTGCTATCAATGCACAGTTAGACCTCTGTGAGGATGAAGATGTGTCAATACGACGTCAAGCAATTAAAGAGCTGCCTCAGTTTGCCACAGGAGAAAACCTTCCTAGAGTAGCAGATATACTGACCCAGCTTCTGCAGACAGATGACTCTGCAGAATTTAACCTGGTGAACAATGCTCTGCTAAGTATATTTAAGATGGATGCAAAAGGAACGTTAGGTGGCTTGTTTAGCCAGATTCTTCAAGGAGAAGACATTGTTAGAGAACGAGCAATTAAATTCCTGTCCACAAAACTCAAGACGCTCCCAGATGAGGTGTTGACTAAGGAAGTGGAGGAACTCATACTCACTGAGTCCAAGAAGGTCCTAGAAGACGTGACTGGTGAAGAGTTTGTTTTGTTCATGAAGATACTGTCTGGGTTGAAAAGCTTACAGACAGTGAGTGGACGACAGCAGCTGGTGGAGCTGGTGGCGGAACAGGCTGACCTGGAGCAGGCCTTCAGCCCCTCAGACCCCGACTGTGTGGACAGACTACTGCAGTGCACGCGGCAGGCTGTGCCTCTCTTCTCCAAAAATGTGCATTCTACAAGATTTGTGACGTATTTCTGTGAGCAAGTTCTCCCTAACCTCAGCACCCTGACCACCCCAGTGGAAGGCCTCGATATACAGCTGGAGGTATTAAAGTTGTTGGCAGAGATGAGTTCATTTTGTGGTGACATGGAAAAACTAGAAACAAATTTAAGAAAACTGTTTGATAAGTTATTGGAGTATATGCCTCTCCCTCCAGAAGAAGCAGAAAATGGGGAGAATGCTGGTAATGAGGAGCCCAAGCTGCAGTTCAGTTATGTGGAGTGCTTATTGTACAGTTTTCATCAGTTGGGGCGAAAACTTCCAGACTTCTTAACAGCCAAACTGAATGCAGAAAAACTCAAGGATTTCAAAATTAGGTTGCAGTACTTTGCACGGGGCCTGCAGGTTTATATCAGACAACTTCGCTTGGCTCTCCAGGGTAAAACAGGCGAGGCCTTAAAAACAGAGGAGAACAAGATAAAAGTTGTTGCACTGAAAATAACAAACAATATCAATGTTTTAATCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCCAGGGTAAAACAGGCGAG
59.68
AATCGCTTTTCCTTGGTGCC
59.4
157
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTCCAGGGTAAAACAGGCGA
59.68
AATCGCTTTTCCTTGGTGCC
59.4
158
PCR template sequence:
GGCTCTCCAGGGTAAAACAGGCGAGGCCTTAAAAACAGAGGAGAACAAGATAAAAGTTGTTGCACTGAAAATAACAAACAATATCAATGTTTTAATCAAGCATAAAGATGCCTACCAAGTGATACTGGATGGCGTGAAAGGCGGCACCAAGGAAAAGCGATTAGCAGCTCAGTTTATACCAAAATTCTTTAAGCATTTTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
12
Interacting miRNAs (#binding sites)
mmu-miR-1904(2), mmu-miR-19b-3p(1), mmu-miR-33-5p(1), mmu-miR-19a-3p(1), mmu-miR-148b-3p(1), mmu-miR-148a-3p(1), mmu-miR-199b-3p(1), mmu-miR-301b-3p(1), mmu-miR-199a-3p(1), mmu-miR-382-5p(1), mmu-miR-301a-3p(1), mmu-miR-5101(1)
siRNAs for circular RNA silencing
Junction sequence
TGTTTTAATCAAGCATAAAGATGCCT
siRNA sets
TTTATGCTTGATTAAAACA, CTTTATGCTTGATTAAAAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAPI5_1209_ORF_1
1.0626
0.20251363
0.99999702
2109
ORF sequence:
ATGGATGCAAAAGGAACGTTAGGTGGCTTGTTTAGCCAGATTCTTCAAGGAGAAGACATTGTTAGAGAACGAGCAATTAAATTCCTGTCCACAAAACTCAAGACGCTCCCAGATGAGGTGTTGACTAAGGAAGTGGAGGAACTCATACTCACTGAGTCCAAGAAGGTCCTAGAAGACGTGACTGGTGAAGAGTTTGTTTTGTTCATGAAGATACTGTCTGGGTTGAAAAGCTTACAGACAGTGAGTGGACGACAGCAGCTGGTGGAGCTGGTGGCGGAACAGGCTGACCTGGAGCAGGCCTTCAGCCCCTCAGACCCCGACTGTGTGGACAGACTACTGCAGTGCACGCGGCAGGCTGTGCCTCTCTTCTCCAAAAATGTGCATTCTACAAGATTTGTGACGTATTTCTGTGAGCAAGTTCTCCCTAACCTCAGCACCCTGACCACCCCAGTGGAAGGCCTCGATATACAGCTGGAGGTATTAAAGTTGTTGGCAGAGATGAGTTCATTTTGTGGTGACATGGAAAAACTAGAAACAAATTTAAGAAAACTGTTTGATAAGTTATTGGAGTATATGCCTCTCCCTCCAGAAGAAGCAGAAAATGGGGAGAATGCTGGTAATGAGGAGCCCAAGCTGCAGTTCAGTTATGTGGAGTGCTTATTGTACAGTTTTCATCAGTTGGGGCGAAAACTTCCAGACTTCTTAACAGCCAAACTGAATGCAGAAAAACTCAAGGATTTCAAAATTAGGTTGCAGTACTTTGCACGGGGCCTGCAGGTTTATATCAGACAACTTCGCTTGGCTCTCCAGGGTAAAACAGGCGAGGCCTTAAAAACAGAGGAGAACAAGATAAAAGTTGTTGCACTGAAAATAACAAACAATATCAATGTTTTAATCAAGCATAAAGATGCCTACCAAGTGATACTGGATGGCGTGAAAGGCGGCACCAAGGAAAAGCGATTAGCAGCTCAGTTTATACCAAAATTCTTTAAGCATTTTCCAGAGCTGGCTGATTCTGCTATCAATGCACAGTTAGACCTCTGTGAGGATGAAGATGTGTCAATACGACGTCAAGCAATTAAAGAGCTGCCTCAGTTTGCCACAGGAGAAAACCTTCCTAGAGTAGCAGATATACTGACCCAGCTTCTGCAGACAGATGACTCTGCAGAATTTAACCTGGTGAACAATGCTCTGCTAAGTATATTTAAGATGGATGCAAAAGGAACGTTAGGTGGCTTGTTTAGCCAGATTCTTCAAGGAGAAGACATTGTTAGAGAACGAGCAATTAAATTCCTGTCCACAAAACTCAAGACGCTCCCAGATGAGGTGTTGACTAAGGAAGTGGAGGAACTCATACTCACTGAGTCCAAGAAGGTCCTAGAAGACGTGACTGGTGAAGAGTTTGTTTTGTTCATGAAGATACTGTCTGGGTTGAAAAGCTTACAGACAGTGAGTGGACGACAGCAGCTGGTGGAGCTGGTGGCGGAACAGGCTGACCTGGAGCAGGCCTTCAGCCCCTCAGACCCCGACTGTGTGGACAGACTACTGCAGTGCACGCGGCAGGCTGTGCCTCTCTTCTCCAAAAATGTGCATTCTACAAGATTTGTGACGTATTTCTGTGAGCAAGTTCTCCCTAACCTCAGCACCCTGACCACCCCAGTGGAAGGCCTCGATATACAGCTGGAGGTATTAAAGTTGTTGGCAGAGATGAGTTCATTTTGTGGTGACATGGAAAAACTAGAAACAAATTTAAGAAAACTGTTTGATAAGTTATTGGAGTATATGCCTCTCCCTCCAGAAGAAGCAGAAAATGGGGAGAATGCTGGTAATGAGGAGCCCAAGCTGCAGTTCAGTTATGTGGAGTGCTTATTGTACAGTTTTCATCAGTTGGGGCGAAAACTTCCAGACTTCTTAACAGCCAAACTGAATGCAGAAAAACTCAAGGATTTCAAAATTAGGTTGCAGTACTTTGCACGGGGCCTGCAGGTTTATATCAGACAACTTCGCTTGGCTCTCCAGGGTAAAACAGGCGAGGCCTTAAAAACAGAGGAGAACAAGATAAAAGTTGTTGCACTGAAAATAACAAACAATATCAATGTTTTAATCAAG
Peptide sequence:
MDAKGTLGGLFSQILQGEDIVRERAIKFLSTKLKTLPDEVLTKEVEELILTESKKVLEDVTGEEFVLFMKILSGLKSLQTVSGRQQLVELVAEQADLEQAFSPSDPDCVDRLLQCTRQAVPLFSKNVHSTRFVTYFCEQVLPNLSTLTTPVEGLDIQLEVLKLLAEMSSFCGDMEKLETNLRKLFDKLLEYMPLPPEEAENGENAGNEEPKLQFSYVECLLYSFHQLGRKLPDFLTAKLNAEKLKDFKIRLQYFARGLQVYIRQLRLALQGKTGEALKTEENKIKVVALKITNNINVLIKHKDAYQVILDGVKGGTKEKRLAAQFIPKFFKHFPELADSAINAQLDLCEDEDVSIRRQAIKELPQFATGENLPRVADILTQLLQTDDSAEFNLVNNALLSIFKMDAKGTLGGLFSQILQGEDIVRERAIKFLSTKLKTLPDEVLTKEVEELILTESKKVLEDVTGEEFVLFMKILSGLKSLQTVSGRQQLVELVAEQADLEQAFSPSDPDCVDRLLQCTRQAVPLFSKNVHSTRFVTYFCEQVLPNLSTLTTPVEGLDIQLEVLKLLAEMSSFCGDMEKLETNLRKLFDKLLEYMPLPPEEAENGENAGNEEPKLQFSYVECLLYSFHQLGRKLPDFLTAKLNAEKLKDFKIRLQYFARGLQVYIRQLRLALQGKTGEALKTEENKIKVVALKITNNINVLIK
IRESfinder result
IRESfinder score
0.612511636
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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