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mmu_circPias2_924
Basic information of circular RNA
PanCircBase ID:
mmu_circPias2_924
mm39_Chr. Position ID:
chr18|77207607|77223647|+
Gene name:
Pias2
Transcript:
ENSMUST00000114777.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
4,5,6,7,8,9,10,11
Exon/intron offsets:
0,144,6945,9044,10138,13179,14022,15868
Genomic length:
16040
Exon/intron sizes in nt:
51,91,13,51,06,74,16,10,00,000
Flanking exon/introns:
chr18:77193585-77207607|chr18:77223647-77232698
Splice length:
924
Other database IDs:
circAtlas: mmu-Pias2_0017
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_132209
Human Ortholog IDs:
Mature spliced Sequence:
GGACTTTTTGCCGGGTGGCAGGAGAGACTACACAGTCCAAGTCCAGCTGCGACTTTGCTTGGCAGAGACCAGTTGCCCTCAAGAAGATAACTATCCCAATAGTTTGTGTATAAAAGTCAATGGGAAACTCTTTCCTTTGCCTGGCTATGCGCCACCACCTAAAAATGGGATTGAACAGAAGCGCCCTGGACGCCCCCTGAACATTACGTCTTTAGTTAGGTTGTCTTCAGCTGTGCCAAATCAGATTTCTATTTCTTGGGCATCTGAAATTGGAAAGAATTACTCCATGTCTGTGTATCTTGTACGACAGCTTACATCAGCCATGTTATTACAGAGATTAAAAATGAAAGGTATTAGAAATCCTGATCATTCCAGAGCACTAATTAAAGAAAAACTTACTGCAGACCCTGATAGTGAAATTGCTACAACTAGTCTTCGAGTGTCCTTGATGTGCCCTTTAGGAAAAATGAGGCTGACAATCCCGTGCCGTGCAGTGACTTGTACACATCTGCAGTGCTTTGATGCTGCCCTCTATCTTCAGATGAATGAGAAAAAGCCCACCTGGATCTGTCCTGTTTGTGACAAAAAGGCTGCCTATGAGAGTCTGATACTAGATGGGCTTTTTATGGAAATTCTCAATGACTGTTCTGATGTGGATGAGATCAAATTCCAGGAAGATGGTTCTTGGTGTCCCATGAGACCTAAAAAAGAAGCTATGAAAGTAACCAGCCAGCCCTGTACAAAAGTAGAAAGTTCAAGTGTCTTTAGTAAACCTTGTTCAGTGACTGTAGCCAGTGATGCAAGCAAGAAGAAGATAGATGTTATTGATCTAACAATAGAGAGCTCTTCTGATGAAGAGGAAGACCCTCCCGCCAAAAGGAAATGCATCTTTATGTCAGAAACACAAAGCAGTCCAACCAAAGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTCCCGCCAAAAGGAAATGC
60.11
TTGAGGGCAACTGGTCTCTG
59.6
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTCCCGCCAAAAGGAAATGC
60.11
TCTTGAGGGCAACTGGTCTC
59.31
142
PCR template sequence:
TTGATCTAACAATAGAGAGCTCTTCTGATGAAGAGGAAGACCCTCCCGCCAAAAGGAAATGCATCTTTATGTCAGAAACACAAAGCAGTCCAACCAAAGGGGACTTTTTGCCGGGTGGCAGGAGAGACTACACAGTCCAAGTCCAGCTGCGACTTTGCTTGGCAGAGACCAGTTGCCCTCAAGAAGATAACTATCCCAAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-224-5p(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GTCCAACCAAAGGGGACTTTTTGCCG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPIAS2_924_ORF_1
0.8889
0.038238687
0.999582391
1560
ORF sequence:
ATGTCTGTGTATCTTGTACGACAGCTTACATCAGCCATGTTATTACAGAGATTAAAAATGAAAGGTATTAGAAATCCTGATCATTCCAGAGCACTAATTAAAGAAAAACTTACTGCAGACCCTGATAGTGAAATTGCTACAACTAGTCTTCGAGTGTCCTTGATGTGCCCTTTAGGAAAAATGAGGCTGACAATCCCGTGCCGTGCAGTGACTTGTACACATCTGCAGTGCTTTGATGCTGCCCTCTATCTTCAGATGAATGAGAAAAAGCCCACCTGGATCTGTCCTGTTTGTGACAAAAAGGCTGCCTATGAGAGTCTGATACTAGATGGGCTTTTTATGGAAATTCTCAATGACTGTTCTGATGTGGATGAGATCAAATTCCAGGAAGATGGTTCTTGGTGTCCCATGAGACCTAAAAAAGAAGCTATGAAAGTAACCAGCCAGCCCTGTACAAAAGTAGAAAGTTCAAGTGTCTTTAGTAAACCTTGTTCAGTGACTGTAGCCAGTGATGCAAGCAAGAAGAAGATAGATGTTATTGATCTAACAATAGAGAGCTCTTCTGATGAAGAGGAAGACCCTCCCGCCAAAAGGAAATGCATCTTTATGTCAGAAACACAAAGCAGTCCAACCAAAGGGGACTTTTTGCCGGGTGGCAGGAGAGACTACACAGTCCAAGTCCAGCTGCGACTTTGCTTGGCAGAGACCAGTTGCCCTCAAGAAGATAACTATCCCAATAGTTTGTGTATAAAAGTCAATGGGAAACTCTTTCCTTTGCCTGGCTATGCGCCACCACCTAAAAATGGGATTGAACAGAAGCGCCCTGGACGCCCCCTGAACATTACGTCTTTAGTTAGGTTGTCTTCAGCTGTGCCAAATCAGATTTCTATTTCTTGGGCATCTGAAATTGGAAAGAATTACTCCATGTCTGTGTATCTTGTACGACAGCTTACATCAGCCATGTTATTACAGAGATTAAAAATGAAAGGTATTAGAAATCCTGATCATTCCAGAGCACTAATTAAAGAAAAACTTACTGCAGACCCTGATAGTGAAATTGCTACAACTAGTCTTCGAGTGTCCTTGATGTGCCCTTTAGGAAAAATGAGGCTGACAATCCCGTGCCGTGCAGTGACTTGTACACATCTGCAGTGCTTTGATGCTGCCCTCTATCTTCAGATGAATGAGAAAAAGCCCACCTGGATCTGTCCTGTTTGTGACAAAAAGGCTGCCTATGAGAGTCTGATACTAGATGGGCTTTTTATGGAAATTCTCAATGACTGTTCTGATGTGGATGAGATCAAATTCCAGGAAGATGGTTCTTGGTGTCCCATGAGACCTAAAAAAGAAGCTATGAAAGTAACCAGCCAGCCCTGTACAAAAGTAGAAAGTTCAAGTGTCTTTAGTAAACCTTGTTCAGTGACTGTAGCCAGTGATGCAAGCAAGAAGAAGATAGATGTTATTGATCTAACAATAGAGAGCTCTTCTGATGAAGAGGAAGACCCTCCCGCCAAAAGGAAATGCATCTTTATGTCAGAAACACAAAGCAGTCCAACCAAA
Peptide sequence:
MSVYLVRQLTSAMLLQRLKMKGIRNPDHSRALIKEKLTADPDSEIATTSLRVSLMCPLGKMRLTIPCRAVTCTHLQCFDAALYLQMNEKKPTWICPVCDKKAAYESLILDGLFMEILNDCSDVDEIKFQEDGSWCPMRPKKEAMKVTSQPCTKVESSSVFSKPCSVTVASDASKKKIDVIDLTIESSSDEEEDPPAKRKCIFMSETQSSPTKGDFLPGGRRDYTVQVQLRLCLAETSCPQEDNYPNSLCIKVNGKLFPLPGYAPPPKNGIEQKRPGRPLNITSLVRLSSAVPNQISISWASEIGKNYSMSVYLVRQLTSAMLLQRLKMKGIRNPDHSRALIKEKLTADPDSEIATTSLRVSLMCPLGKMRLTIPCRAVTCTHLQCFDAALYLQMNEKKPTWICPVCDKKAAYESLILDGLFMEILNDCSDVDEIKFQEDGSWCPMRPKKEAMKVTSQPCTKVESSSVFSKPCSVTVASDASKKKIDVIDLTIESSSDEEEDPPAKRKCIFMSETQSSPTK
IRESfinder result
IRESfinder score
0.698737619
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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