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mmu_circHnrnpll_870
Basic information of circular RNA
PanCircBase ID:
mmu_circHnrnpll_870
mm39_Chr. Position ID:
chr17|80341474|80357321|-
Gene name:
Hnrnpll
Transcript:
ENSMUST00000184635.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
10,9,8,7,6,5,4
Exon/intron offsets:
0,1285,4546,10448,14562,14719,15761
Genomic length:
15847
Exon/intron sizes in nt:
202,122,218,72,73,97,86
Flanking exon/introns:
chr17:80340214-80341474|chr17:80357321-80358056
Splice length:
870
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GATGTTCTGTATACTGTATGCAACCCTGTTGGAAAAGTACAGCGTATTGTTATCTTCAAGAGAAATGGGATACAAGCAATGGTTGAGTTTGAGTCAGTCCTTTGCGCCCAGAAGGCTAAAGCAGCACTCAATGGAGCTGATATATATGCCGGATGTTGCACACTAAAAATTGAATATGCAAGGCCAACTCGTCTAAATGTTATTAGGAATGACAATGACAGTTGGGACTACACTAAACCTTATTTGGGAAGACGAGATAGAGGAAAGGGTCGCCAGAGACAAGCCATTTTGGGAGACCATCCTTCTTCGTTTAGACATGATGGCTATGGATCGCATGGTCCGCTACTGCCTTTACCAAGTCGTTATAGAATGGGCTCTAGAGATACACCTGAACTTGTTGCTTATCCATTACCACAAGCGTCTTCCTCTTACATGCATGGAGGCAGTCCGTCTGGCTCCGTTGTAATGGTTAGTGGATTACATCAGCTCAAAATGAATTGTTCAAGAGTCTTCAACCTGTTCTGCTTGTATGGAAATATTGAAAAGGTAAAGTTTATGAAGACCATTCCTGGCACAGCACTCGTAGAAATGGGTGACGAGTACGCTGTGGAAAGAGCTGTCACCCACCTTAATAATGTCAAACTCTTTGGGAAAAGACTTAATGTTTGTGTGTCTAAACAGCACTCAGTTGTTCCCAGTCAAATATTTGAGCTAGAGGATGGTACGAGCAGCTACAAAGATTTTGCAATGAGCAAAAATAATCGCTTTACAAGTGCTGGACAAGCATCTAAGAATATAATCCAGCCACCGTCATGTGTGCTGCATTATTACAATGTTCCGCTGTGTGTCACAGAAGAGACCTTCACAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AATCCAGCCACCGTCATGTG
60.68
GGACTGACTCAAACTCAACCA
57.81
173
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AATCCAGCCACCGTCATGTG
60.68
ACTCAACCATTGCTTGTATCCCA
60.25
161
PCR template sequence:
AAGTGCTGGACAAGCATCTAAGAATATAATCCAGCCACCGTCATGTGTGCTGCATTATTACAATGTTCCGCTGTGTGTCACAGAAGAGACCTTCACAAAGGATGTTCTGTATACTGTATGCAACCCTGTTGGAAAAGTACAGCGTATTGTTATCTTCAAGAGAAATGGGATACAAGCAATGGTTGAGTTTGAGTCAGTCC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-7b-5p(1), mmu-miR-7a-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-296-3p(1), mmu-miR-7a-2-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GACCTTCACAAAGGATGTTCTGTATA
siRNA sets
AACATCCTTTGTGAAGGTC, GAACATCCTTTGTGAAGGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCHNRNPLL_870_ORF_1
0.8432
0.014234909
0.99976033
1662
ORF sequence:
ATGGTTGAGTTTGAGTCAGTCCTTTGCGCCCAGAAGGCTAAAGCAGCACTCAATGGAGCTGATATATATGCCGGATGTTGCACACTAAAAATTGAATATGCAAGGCCAACTCGTCTAAATGTTATTAGGAATGACAATGACAGTTGGGACTACACTAAACCTTATTTGGGAAGACGAGATAGAGGAAAGGGTCGCCAGAGACAAGCCATTTTGGGAGACCATCCTTCTTCGTTTAGACATGATGGCTATGGATCGCATGGTCCGCTACTGCCTTTACCAAGTCGTTATAGAATGGGCTCTAGAGATACACCTGAACTTGTTGCTTATCCATTACCACAAGCGTCTTCCTCTTACATGCATGGAGGCAGTCCGTCTGGCTCCGTTGTAATGGTTAGTGGATTACATCAGCTCAAAATGAATTGTTCAAGAGTCTTCAACCTGTTCTGCTTGTATGGAAATATTGAAAAGGTAAAGTTTATGAAGACCATTCCTGGCACAGCACTCGTAGAAATGGGTGACGAGTACGCTGTGGAAAGAGCTGTCACCCACCTTAATAATGTCAAACTCTTTGGGAAAAGACTTAATGTTTGTGTGTCTAAACAGCACTCAGTTGTTCCCAGTCAAATATTTGAGCTAGAGGATGGTACGAGCAGCTACAAAGATTTTGCAATGAGCAAAAATAATCGCTTTACAAGTGCTGGACAAGCATCTAAGAATATAATCCAGCCACCGTCATGTGTGCTGCATTATTACAATGTTCCGCTGTGTGTCACAGAAGAGACCTTCACAAAGGATGTTCTGTATACTGTATGCAACCCTGTTGGAAAAGTACAGCGTATTGTTATCTTCAAGAGAAATGGGATACAAGCAATGGTTGAGTTTGAGTCAGTCCTTTGCGCCCAGAAGGCTAAAGCAGCACTCAATGGAGCTGATATATATGCCGGATGTTGCACACTAAAAATTGAATATGCAAGGCCAACTCGTCTAAATGTTATTAGGAATGACAATGACAGTTGGGACTACACTAAACCTTATTTGGGAAGACGAGATAGAGGAAAGGGTCGCCAGAGACAAGCCATTTTGGGAGACCATCCTTCTTCGTTTAGACATGATGGCTATGGATCGCATGGTCCGCTACTGCCTTTACCAAGTCGTTATAGAATGGGCTCTAGAGATACACCTGAACTTGTTGCTTATCCATTACCACAAGCGTCTTCCTCTTACATGCATGGAGGCAGTCCGTCTGGCTCCGTTGTAATGGTTAGTGGATTACATCAGCTCAAAATGAATTGTTCAAGAGTCTTCAACCTGTTCTGCTTGTATGGAAATATTGAAAAGGTAAAGTTTATGAAGACCATTCCTGGCACAGCACTCGTAGAAATGGGTGACGAGTACGCTGTGGAAAGAGCTGTCACCCACCTTAATAATGTCAAACTCTTTGGGAAAAGACTTAATGTTTGTGTGTCTAAACAGCACTCAGTTGTTCCCAGTCAAATATTTGAGCTAGAGGATGGTACGAGCAGCTACAAAGATTTTGCAATGAGCAAAAATAATCGCTTTACAAGTGCTGGACAAGCATCTAAGAATATAATCCAGCCACCGTCATGTGTGCTGCATTATTACAATGTTCCGCTGTGTGTCACAGAAGAGACCTTCACAAAG
Peptide sequence:
MVEFESVLCAQKAKAALNGADIYAGCCTLKIEYARPTRLNVIRNDNDSWDYTKPYLGRRDRGKGRQRQAILGDHPSSFRHDGYGSHGPLLPLPSRYRMGSRDTPELVAYPLPQASSSYMHGGSPSGSVVMVSGLHQLKMNCSRVFNLFCLYGNIEKVKFMKTIPGTALVEMGDEYAVERAVTHLNNVKLFGKRLNVCVSKQHSVVPSQIFELEDGTSSYKDFAMSKNNRFTSAGQASKNIIQPPSCVLHYYNVPLCVTEETFTKDVLYTVCNPVGKVQRIVIFKRNGIQAMVEFESVLCAQKAKAALNGADIYAGCCTLKIEYARPTRLNVIRNDNDSWDYTKPYLGRRDRGKGRQRQAILGDHPSSFRHDGYGSHGPLLPLPSRYRMGSRDTPELVAYPLPQASSSYMHGGSPSGSVVMVSGLHQLKMNCSRVFNLFCLYGNIEKVKFMKTIPGTALVEMGDEYAVERAVTHLNNVKLFGKRLNVCVSKQHSVVPSQIFELEDGTSSYKDFAMSKNNRFTSAGQASKNIIQPPSCVLHYYNVPLCVTEETFTK
IRESfinder result
IRESfinder score
0.527984616
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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