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mmu_circCep78_648
Basic information of circular RNA
PanCircBase ID:
mmu_circCep78_648
mm39_Chr. Position ID:
chr19|15947896|15956319|-
Gene name:
Cep78
Transcript:
ENSMUST00000235718.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
10,9,8,7,6,5
Exon/intron offsets:
0,363,3823,4355,5716,8248
Genomic length:
8423
Exon/intron sizes in nt:
4,61,36,11,26,51,14,170
Flanking exon/introns:
chr19:15946564-15947896|chr19:15956319-15958455
Splice length:
648
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
TATCAAACCATGAGAAGGCATGAAGAAACCTGGGCGGAGAGCCTCCGCTACAGGAGACCCGATCTGGACTGCATGGCTGGCTTACGGCGCATCACACTGAACTGCAACACACTCATTGGTGACCAGGGTGCAAGTGCCTTTGCAGACTCTCTTAGTGAGGACCTGTGGCTTCGAGCACTCGACCTGCAGCAGTGCGGCCTCACCAGTGAAGGGGCCAAGGCTTTACTGGAGGCCCTGGAAACCAACAGAACCCTGGTCGTTCTGGATATAAGGAAAAACCCACTTATTGATCATTCTATGATGAAAGCAGTTATCAAAAAGGTCCTCCAGAACGGAAGGAGTGCAGACTCAGAGTACCAGTGGGTTACATCCCCATCATCAAAGGAACCGTCTAAAACCGCTAAGCAGAGAAAGAAAACAATTGTCTTAGGAAGCAGCCGGAAGGGAAAAGCAACCATTAGAATTGGTTTAGCTACAAAGAAGCCTTCGAGTAATGGGAGAAAACAGGGGCTCGGTAAAGACTGCTATGCTCCCAACCCTCTGCCTCCAGGCGCATCTGGTTTCTTGCCTTGGCGAACAGCAGAACGTGCAAAAAGAAGCAGGAGTTCTTCATTAATCAAAACTCGTGATCTATCAAATCACCTGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGTTTCTTGCCTTGGCGAAC
60.32
AGTCCAGATCGGGTCTCCTG
60.4
160
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGTTTCTTGCCTTGGCGAAC
60.32
CAGTCCAGATCGGGTCTCCT
60.4
161
PCR template sequence:
AGGCGCATCTGGTTTCTTGCCTTGGCGAACAGCAGAACGTGCAAAAAGAAGCAGGAGTTCTTCATTAATCAAAACTCGTGATCTATCAAATCACCTGAAGTATCAAACCATGAGAAGGCATGAAGAAACCTGGGCGGAGAGCCTCCGCTACAGGAGACCCGATCTGGACTGCATGGCTGGCTTACGGCGCATCACACTGA
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-31-5p(1), mmu-miR-709(1), mmu-miR-411-3p(1), mmu-miR-29b-2-5p(1), mmu-miR-129-5p(1), mmu-miR-1904(1), mmu-miR-574-5p(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AAATCACCTGAAGTATCAAACCATGA
siRNA sets
CATGGTTTGATACTTCAGG, ATGGTTTGATACTTCAGGT, TCATGGTTTGATACTTCAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCEP78_648_ORF_1
0.7067
0.163446071
0.997518617
1287
ORF sequence:
ATGAGAAGGCATGAAGAAACCTGGGCGGAGAGCCTCCGCTACAGGAGACCCGATCTGGACTGCATGGCTGGCTTACGGCGCATCACACTGAACTGCAACACACTCATTGGTGACCAGGGTGCAAGTGCCTTTGCAGACTCTCTTAGTGAGGACCTGTGGCTTCGAGCACTCGACCTGCAGCAGTGCGGCCTCACCAGTGAAGGGGCCAAGGCTTTACTGGAGGCCCTGGAAACCAACAGAACCCTGGTCGTTCTGGATATAAGGAAAAACCCACTTATTGATCATTCTATGATGAAAGCAGTTATCAAAAAGGTCCTCCAGAACGGAAGGAGTGCAGACTCAGAGTACCAGTGGGTTACATCCCCATCATCAAAGGAACCGTCTAAAACCGCTAAGCAGAGAAAGAAAACAATTGTCTTAGGAAGCAGCCGGAAGGGAAAAGCAACCATTAGAATTGGTTTAGCTACAAAGAAGCCTTCGAGTAATGGGAGAAAACAGGGGCTCGGTAAAGACTGCTATGCTCCCAACCCTCTGCCTCCAGGCGCATCTGGTTTCTTGCCTTGGCGAACAGCAGAACGTGCAAAAAGAAGCAGGAGTTCTTCATTAATCAAAACTCGTGATCTATCAAATCACCTGAAGTATCAAACCATGAGAAGGCATGAAGAAACCTGGGCGGAGAGCCTCCGCTACAGGAGACCCGATCTGGACTGCATGGCTGGCTTACGGCGCATCACACTGAACTGCAACACACTCATTGGTGACCAGGGTGCAAGTGCCTTTGCAGACTCTCTTAGTGAGGACCTGTGGCTTCGAGCACTCGACCTGCAGCAGTGCGGCCTCACCAGTGAAGGGGCCAAGGCTTTACTGGAGGCCCTGGAAACCAACAGAACCCTGGTCGTTCTGGATATAAGGAAAAACCCACTTATTGATCATTCTATGATGAAAGCAGTTATCAAAAAGGTCCTCCAGAACGGAAGGAGTGCAGACTCAGAGTACCAGTGGGTTACATCCCCATCATCAAAGGAACCGTCTAAAACCGCTAAGCAGAGAAAGAAAACAATTGTCTTAGGAAGCAGCCGGAAGGGAAAAGCAACCATTAGAATTGGTTTAGCTACAAAGAAGCCTTCGAGTAATGGGAGAAAACAGGGGCTCGGTAAAGACTGCTATGCTCCCAACCCTCTGCCTCCAGGCGCATCTGGTTTCTTGCCTTGGCGAACAGCAGAACGTGCAAAAAGAAGCAGGAGTTCTTCATTAATCAAAACTCGTGATCTATCAAATCACCTGAAG
Peptide sequence:
MRRHEETWAESLRYRRPDLDCMAGLRRITLNCNTLIGDQGASAFADSLSEDLWLRALDLQQCGLTSEGAKALLEALETNRTLVVLDIRKNPLIDHSMMKAVIKKVLQNGRSADSEYQWVTSPSSKEPSKTAKQRKKTIVLGSSRKGKATIRIGLATKKPSSNGRKQGLGKDCYAPNPLPPGASGFLPWRTAERAKRSRSSSLIKTRDLSNHLKYQTMRRHEETWAESLRYRRPDLDCMAGLRRITLNCNTLIGDQGASAFADSLSEDLWLRALDLQQCGLTSEGAKALLEALETNRTLVVLDIRKNPLIDHSMMKAVIKKVLQNGRSADSEYQWVTSPSSKEPSKTAKQRKKTIVLGSSRKGKATIRIGLATKKPSSNGRKQGLGKDCYAPNPLPPGASGFLPWRTAERAKRSRSSSLIKTRDLSNHLK
IRESfinder result
IRESfinder score
0.495641065
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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