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mmu_circSipa1l1_849
Basic information of circular RNA
PanCircBase ID:
mmu_circSipa1l1_849
mm39_Chr. Position ID:
chr12|82442966|82444394|+
Gene name:
Sipa1l1
Transcript:
ENSMUST00000166429.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
10,11
Exon/intron offsets:
0,1153
Genomic length:
1428
Exon/intron sizes in nt:
5,74,275
Flanking exon/introns:
chr12:82434486-82442966|chr12:82444394-82449683
Splice length:
849
Other database IDs:
CIRCpedia: MMU_CIRCpedia_31062, circAtlas: mmu-Sipa1l1_0012
Human Ortholog IDs:
Mature spliced Sequence:
TGTGGCAGTCACCAGGTCCAGAGATGTACCTTCTTTTGGACCTCCCATCCCTAAAGGGGTCACCTTCCCCAAGTCAAATGTGTTCAGGGACTTCCTTTTGGCCAAAGTGATAAATGCAGAAAATGCTGCTCATAAATCAGAGAAGTTCCGGGCCATGGCGACAAGGACCCGCCAGGAATACCTGAAAGATCTGGCAGAAAAGAATGTCACCAACACACCTATTGACCCTTCTGGCAAGTTTCCATTTATTTCTCTGGCCTCCAAGAAGAAGGAAAAGTCTAAGCCTTATCCAGGAGCTGAGCTCAGTAGCATGGGGGCCATTGTGTGGGCTGTCCGGGCCAAAGACTACAACAAGGCCATGGAGTTCGACTGCCTCCTTGGGATCTCCAGCGAGTTCATCGTCCTCATTGAGCAGGAGACAAAGAGTGTGGCTTTCAATTGCTCCTGCAGAGATGTCATAGGGTGGACTTCCAGCGACACCAGCCTCAAAATCTTCTATGAGCGGGGAGAATGTGTGTCGGTGGAGAGCTTCATTAGCGGTGAAGATATCAAAGAAATTGTCAGAAGGCTGCAGTTTGTTTCAAAAGGTTGTGAATCTGTGGAAATGACTCTGCGAAGAAATGGGCTGGGGCAGCTTGGCTTCCATGTCAACTATGAGGGCATTGTGGCGGATGTAGAACCCTACGGCTACGCATGGCAAGCAGGGCTGAGGCAGGGCAGCCGCCTGGTGGAGATCTGCAAGGTAGCAGTGGCCACCCTGAGCCATGAACAGATGATCGATCTCTTGAGAACATCAGTCACAGTGAAGGTTGTCATTATCCCTCCCCATGACGACTGCACCCCACGGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CACCCTGAGCCATGAACAGA
59.67
TTGACTTGGGGAAGGTGACC
59.52
173
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCACCCTGAGCCATGAACAG
60.68
TTGACTTGGGGAAGGTGACC
59.52
174
PCR template sequence:
TGGCCACCCTGAGCCATGAACAGATGATCGATCTCTTGAGAACATCAGTCACAGTGAAGGTTGTCATTATCCCTCCCCATGACGACTGCACCCCACGGAGTGTGGCAGTCACCAGGTCCAGAGATGTACCTTCTTTTGGACCTCCCATCCCTAAAGGGGTCACCTTCCCCAAGTCAAATGTGTTCAGGGACTTCCTTTTG
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-134-5p(1), mmu-miR-15a-5p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-138-5p(1), mmu-miR-495-3p(1), mmu-miR-342-5p(1), mmu-miR-670-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GCACCCCACGGAGTGTGGCAGTCACC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSIPA1L1_849_ORF_1
1.1875
0.34982116
0.9999239
1542
ORF sequence:
ATGGCGACAAGGACCCGCCAGGAATACCTGAAAGATCTGGCAGAAAAGAATGTCACCAACACACCTATTGACCCTTCTGGCAAGTTTCCATTTATTTCTCTGGCCTCCAAGAAGAAGGAAAAGTCTAAGCCTTATCCAGGAGCTGAGCTCAGTAGCATGGGGGCCATTGTGTGGGCTGTCCGGGCCAAAGACTACAACAAGGCCATGGAGTTCGACTGCCTCCTTGGGATCTCCAGCGAGTTCATCGTCCTCATTGAGCAGGAGACAAAGAGTGTGGCTTTCAATTGCTCCTGCAGAGATGTCATAGGGTGGACTTCCAGCGACACCAGCCTCAAAATCTTCTATGAGCGGGGAGAATGTGTGTCGGTGGAGAGCTTCATTAGCGGTGAAGATATCAAAGAAATTGTCAGAAGGCTGCAGTTTGTTTCAAAAGGTTGTGAATCTGTGGAAATGACTCTGCGAAGAAATGGGCTGGGGCAGCTTGGCTTCCATGTCAACTATGAGGGCATTGTGGCGGATGTAGAACCCTACGGCTACGCATGGCAAGCAGGGCTGAGGCAGGGCAGCCGCCTGGTGGAGATCTGCAAGGTAGCAGTGGCCACCCTGAGCCATGAACAGATGATCGATCTCTTGAGAACATCAGTCACAGTGAAGGTTGTCATTATCCCTCCCCATGACGACTGCACCCCACGGAGTGTGGCAGTCACCAGGTCCAGAGATGTACCTTCTTTTGGACCTCCCATCCCTAAAGGGGTCACCTTCCCCAAGTCAAATGTGTTCAGGGACTTCCTTTTGGCCAAAGTGATAAATGCAGAAAATGCTGCTCATAAATCAGAGAAGTTCCGGGCCATGGCGACAAGGACCCGCCAGGAATACCTGAAAGATCTGGCAGAAAAGAATGTCACCAACACACCTATTGACCCTTCTGGCAAGTTTCCATTTATTTCTCTGGCCTCCAAGAAGAAGGAAAAGTCTAAGCCTTATCCAGGAGCTGAGCTCAGTAGCATGGGGGCCATTGTGTGGGCTGTCCGGGCCAAAGACTACAACAAGGCCATGGAGTTCGACTGCCTCCTTGGGATCTCCAGCGAGTTCATCGTCCTCATTGAGCAGGAGACAAAGAGTGTGGCTTTCAATTGCTCCTGCAGAGATGTCATAGGGTGGACTTCCAGCGACACCAGCCTCAAAATCTTCTATGAGCGGGGAGAATGTGTGTCGGTGGAGAGCTTCATTAGCGGTGAAGATATCAAAGAAATTGTCAGAAGGCTGCAGTTTGTTTCAAAAGGTTGTGAATCTGTGGAAATGACTCTGCGAAGAAATGGGCTGGGGCAGCTTGGCTTCCATGTCAACTATGAGGGCATTGTGGCGGATGTAGAACCCTACGGCTACGCATGGCAAGCAGGGCTGAGGCAGGGCAGCCGCCTGGTGGAGATCTGCAAGGTAGCAGTGGCCACCCTGAGCCATGAACAGATGATCGATCTCTTGAGAACATCAGTCACAGTGAAGGTTGTCATTATCCCTCCCCATGACGACTGCACCCCACGG
Peptide sequence:
MATRTRQEYLKDLAEKNVTNTPIDPSGKFPFISLASKKKEKSKPYPGAELSSMGAIVWAVRAKDYNKAMEFDCLLGISSEFIVLIEQETKSVAFNCSCRDVIGWTSSDTSLKIFYERGECVSVESFISGEDIKEIVRRLQFVSKGCESVEMTLRRNGLGQLGFHVNYEGIVADVEPYGYAWQAGLRQGSRLVEICKVAVATLSHEQMIDLLRTSVTVKVVIIPPHDDCTPRSVAVTRSRDVPSFGPPIPKGVTFPKSNVFRDFLLAKVINAENAAHKSEKFRAMATRTRQEYLKDLAEKNVTNTPIDPSGKFPFISLASKKKEKSKPYPGAELSSMGAIVWAVRAKDYNKAMEFDCLLGISSEFIVLIEQETKSVAFNCSCRDVIGWTSSDTSLKIFYERGECVSVESFISGEDIKEIVRRLQFVSKGCESVEMTLRRNGLGQLGFHVNYEGIVADVEPYGYAWQAGLRQGSRLVEICKVAVATLSHEQMIDLLRTSVTVKVVIIPPHDDCTPR
IRESfinder result
IRESfinder score
0.438705072
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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