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mmu_circPrpf8_902
Basic information of circular RNA
PanCircBase ID:
mmu_circPrpf8_902
mm39_Chr. Position ID:
chr11|75386059|75387905|+
Gene name:
Prpf8
Transcript:
ENSMUST00000018449.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
19,20,21,22,23
Exon/intron offsets:
0,348,796,1107,1729
Genomic length:
1846
Exon/intron sizes in nt:
18,82,39,14,72,11,117
Flanking exon/introns:
chr11:75385692-75386059|chr11:75387905-75390624
Splice length:
902
Other database IDs:
circAtlas: mmu-Prpf8_0007
Human Ortholog IDs:
Mature spliced Sequence:
GCATTAATAACCTGCAGGATGTGTGGGAGACGAGTGAGGGCGAGTGCAACGTCATGCTGGAGTCTCGGTTTGAGAAGATGTATGAGAAGATTGACCTGACCCTGCTTAACAGGCTGCTGCGACTCATTGTGGACCACAACATAGCTGACTACATGACGGCCAAGAACAACGTAGTCATCAACTATAAGGACATGAACCATACAAACTCATATGGAATCATCAGAGGCCTGCAGTTTGCCTCATTCATTGTACAGTACTATGGCTTGGTGATGGATTTGCTTGTACTGGGATTGCACCGGGCCAGTGAGATGGCTGGGCCTCCTCAGATGCCAAATGACTTTCTCAGTTTCCAGGACATAGCCACTGAGGCTGCACACCCAATCCGACTCTTCTGTAGATACATTGATCGCATCCATATTTTCTTCAGGTTCACAGCAGATGAGGCTCGGGATCTGATCCAGCGTTACCTGACAGAACACCCAGACCCCAACAATGAAAACATTGTTGGCTACAATAACAAGAAATGCTGGCCCCGAGATGCCCGAATGCGGCTCATGAAGCATGATGTCAACTTGGGTCGGGCAGTGTTCTGGGACATCAAAAACCGGCTGCCACGATCGGTGACTACAGTACAGTGGGAGAATAGCTTTGTGTCTGTGTACAGTAAAGACAACCCCAACCTGCTATTCAACATGTGTGGCTTTGAGTGCCGCATCCTGCCTAAGTGCCGTACCAGCTATGAAGAGTTCACCCACAAGGACGGGGTCTGGAACCTACAGAATGAGGTTACCAAGGAGCGGACAGCTCAGTGCTTCCTGCGTGTGGATGATGAGTCAATGCAACGCTTCCATAACCGTGTGCGGCAGATTCTGATGGCCTCTGGCTCCACCACGTTCACCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCTGCGTGTGGATGATGAGT
60.11
CGAGACTCCAGCATGACGTT
60.11
155
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCCTGCGTGTGGATGATGAG
59.82
CGAGACTCCAGCATGACGTT
60.11
156
PCR template sequence:
AGCTCAGTGCTTCCTGCGTGTGGATGATGAGTCAATGCAACGCTTCCATAACCGTGTGCGGCAGATTCTGATGGCCTCTGGCTCCACCACGTTCACCAAGGCATTAATAACCTGCAGGATGTGTGGGAGACGAGTGAGGGCGAGTGCAACGTCATGCTGGAGTCTCGGTTTGAGAAGATGTATGAGAAGATTGACCTGAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-676-3p(1), mmu-miR-335-3p(1), mmu-miR-193b-3p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CACGTTCACCAAGGCATTAATAACCT
siRNA sets
ATTAATGCCTTGGTGAACG, TTAATGCCTTGGTGAACGT, TATTAATGCCTTGGTGAAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPRPF8_902_ORF_1
1.0869
0.328215496
0.992746429
948
ORF sequence:
ATGCTGGAGTCTCGGTTTGAGAAGATGTATGAGAAGATTGACCTGACCCTGCTTAACAGGCTGCTGCGACTCATTGTGGACCACAACATAGCTGACTACATGACGGCCAAGAACAACGTAGTCATCAACTATAAGGACATGAACCATACAAACTCATATGGAATCATCAGAGGCCTGCAGTTTGCCTCATTCATTGTACAGTACTATGGCTTGGTGATGGATTTGCTTGTACTGGGATTGCACCGGGCCAGTGAGATGGCTGGGCCTCCTCAGATGCCAAATGACTTTCTCAGTTTCCAGGACATAGCCACTGAGGCTGCACACCCAATCCGACTCTTCTGTAGATACATTGATCGCATCCATATTTTCTTCAGGTTCACAGCAGATGAGGCTCGGGATCTGATCCAGCGTTACCTGACAGAACACCCAGACCCCAACAATGAAAACATTGTTGGCTACAATAACAAGAAATGCTGGCCCCGAGATGCCCGAATGCGGCTCATGAAGCATGATGTCAACTTGGGTCGGGCAGTGTTCTGGGACATCAAAAACCGGCTGCCACGATCGGTGACTACAGTACAGTGGGAGAATAGCTTTGTGTCTGTGTACAGTAAAGACAACCCCAACCTGCTATTCAACATGTGTGGCTTTGAGTGCCGCATCCTGCCTAAGTGCCGTACCAGCTATGAAGAGTTCACCCACAAGGACGGGGTCTGGAACCTACAGAATGAGGTTACCAAGGAGCGGACAGCTCAGTGCTTCCTGCGTGTGGATGATGAGTCAATGCAACGCTTCCATAACCGTGTGCGGCAGATTCTGATGGCCTCTGGCTCCACCACGTTCACCAAGGCATTAATAACCTGCAGGATGTGTGGGAGACGAGTGAGGGCGAGTGCAACGTCATGCTGGAGTCTCGGTTTGAGAAGATGTATGAGAAGATTGACCTGA
Peptide sequence:
MLESRFEKMYEKIDLTLLNRLLRLIVDHNIADYMTAKNNVVINYKDMNHTNSYGIIRGLQFASFIVQYYGLVMDLLVLGLHRASEMAGPPQMPNDFLSFQDIATEAAHPIRLFCRYIDRIHIFFRFTADEARDLIQRYLTEHPDPNNENIVGYNNKKCWPRDARMRLMKHDVNLGRAVFWDIKNRLPRSVTTVQWENSFVSVYSKDNPNLLFNMCGFECRILPKCRTSYEEFTHKDGVWNLQNEVTKERTAQCFLRVDDESMQRFHNRVRQILMASGSTTFTKALITCRMCGRRVRASATSCWSLGLRRCMRRLT
IRESfinder result
IRESfinder score
0.383370195
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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