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mmu_circPmpca_909
Basic information of circular RNA
PanCircBase ID:
mmu_circPmpca_909
mm39_Chr. Position ID:
chr2|26280506|26283592|+
Gene name:
Pmpca
Transcript:
ENSMUST00000076431.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
4,5,6,7,8,9,10,11
Exon/intron offsets:
0,589,1371,1917,2411,2591,2802,3023
Genomic length:
3086
Exon/intron sizes in nt:
83,95,101,264,93,119,91,63
Flanking exon/introns:
chr2:26280322-26280506|chr2:26283592-26285036
Splice length:
909
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
TCCACTGCTCGATTTGACAGCAAAGACGAAATCCTGCTTACGCTGGAAAAACATGGTGGTATCTGTGACTGCCAGACCTCAAGAGACACCACCATGTATGCTGTGTCTGCTGACAGCAAAGGCTTGGACACTGTGGTGGATCTGTTGGCTGATGTGGTTCTGCACCCCCGACTGACAGATGAAGAAATTGAGATGACGAGGATGGCTGTGCAGTTTGAACTAGAGGACCTGAACATGAGACCTGACCCAGAGCCACTGCTCACCGAGATGATTCATGAAGCTGCTTTTAGGGAGAACACAGTGGGTCTGCACCGGTTCTGCCCTGTAGAGAACATAGCGAAGATCGATCGGGAAGTGCTGCACTCCTACCTAAAGAACTACTACACCCCTGACCGCATGGTGCTTGCTGGGGTGGGCGTGGAGCATGAGCACCTAGTAGAATGTGCCAGAAAGTACCTCGTGGGAGCCGAGCCTGCCTGGGGAGCCCCTGGAACGGTGGACGTTGACAGATCAGTGGCACAGTACACTGGGGGGATCATCAAGGTGGAAAGAGACATGTCAAATGTCAGCCTTGGCCCAACCCCAATTCCAGAGCTCACACACATCATGGTGGGACTGGAGAGCTGTTCCTTCCTGGAGGACGACTTCATCCCCTTTGCTGTGCTGAATATGATGATGGGAGGAGGGGGCTCCTTCTCAGCTGGAGGGCCTGGCAAAGGCATGTTCTCCAGGCTCTACCTCAATGTGCTCAATCGGCACCACTGGATGTACAATGCAACCTCCTACCACCACAGCTATGAAGATACAGGCCTCCTGTGCATTCATGCCAGCGCAGACCCAAGACAAGTTCGAGAAATGGTAGAAATCATCACAAAGGAGTTTATCTTGATGGGCAGGACGGTGGATTTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCAGACCCAAGACAAGTTCG
59.13
GGTGTCTCTTGAGGTCTGGC
60.04
168
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGCAGACCCAAGACAAGTTC
59.13
GGTGTCTCTTGAGGTCTGGC
60.04
169
PCR template sequence:
CCTCCTGTGCATTCATGCCAGCGCAGACCCAAGACAAGTTCGAGAAATGGTAGAAATCATCACAAAGGAGTTTATCTTGATGGGCAGGACGGTGGATTTGTCCACTGCTCGATTTGACAGCAAAGACGAAATCCTGCTTACGCTGGAAAAACATGGTGGTATCTGTGACTGCCAGACCTCAAGAGACACCACCATGTATG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
19
Interacting miRNAs (#binding sites)
mmu-let-7e-5p(2), mmu-let-7d-5p(2), mmu-let-7a-5p(1), mmu-miR-27b-3p(1), mmu-miR-199a-5p(1), mmu-let-7c-5p(1), mmu-miR-29b-3p(1), mmu-miR-29a-3p(1), mmu-miR-33-5p(1), mmu-miR-298-5p(1), mmu-miR-181b-5p(1), mmu-miR-214-3p(1), mmu-miR-128-3p(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-466p-5p(1), mmu-miR-484(1), mmu-miR-296-3p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GACGGTGGATTTGTCCACTGCTCGAT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPMPCA_909_ORF_1
1.1821
0.37659294
0.999981553
1725
ORF sequence:
ATGTATGCTGTGTCTGCTGACAGCAAAGGCTTGGACACTGTGGTGGATCTGTTGGCTGATGTGGTTCTGCACCCCCGACTGACAGATGAAGAAATTGAGATGACGAGGATGGCTGTGCAGTTTGAACTAGAGGACCTGAACATGAGACCTGACCCAGAGCCACTGCTCACCGAGATGATTCATGAAGCTGCTTTTAGGGAGAACACAGTGGGTCTGCACCGGTTCTGCCCTGTAGAGAACATAGCGAAGATCGATCGGGAAGTGCTGCACTCCTACCTAAAGAACTACTACACCCCTGACCGCATGGTGCTTGCTGGGGTGGGCGTGGAGCATGAGCACCTAGTAGAATGTGCCAGAAAGTACCTCGTGGGAGCCGAGCCTGCCTGGGGAGCCCCTGGAACGGTGGACGTTGACAGATCAGTGGCACAGTACACTGGGGGGATCATCAAGGTGGAAAGAGACATGTCAAATGTCAGCCTTGGCCCAACCCCAATTCCAGAGCTCACACACATCATGGTGGGACTGGAGAGCTGTTCCTTCCTGGAGGACGACTTCATCCCCTTTGCTGTGCTGAATATGATGATGGGAGGAGGGGGCTCCTTCTCAGCTGGAGGGCCTGGCAAAGGCATGTTCTCCAGGCTCTACCTCAATGTGCTCAATCGGCACCACTGGATGTACAATGCAACCTCCTACCACCACAGCTATGAAGATACAGGCCTCCTGTGCATTCATGCCAGCGCAGACCCAAGACAAGTTCGAGAAATGGTAGAAATCATCACAAAGGAGTTTATCTTGATGGGCAGGACGGTGGATTTGTCCACTGCTCGATTTGACAGCAAAGACGAAATCCTGCTTACGCTGGAAAAACATGGTGGTATCTGTGACTGCCAGACCTCAAGAGACACCACCATGTATGCTGTGTCTGCTGACAGCAAAGGCTTGGACACTGTGGTGGATCTGTTGGCTGATGTGGTTCTGCACCCCCGACTGACAGATGAAGAAATTGAGATGACGAGGATGGCTGTGCAGTTTGAACTAGAGGACCTGAACATGAGACCTGACCCAGAGCCACTGCTCACCGAGATGATTCATGAAGCTGCTTTTAGGGAGAACACAGTGGGTCTGCACCGGTTCTGCCCTGTAGAGAACATAGCGAAGATCGATCGGGAAGTGCTGCACTCCTACCTAAAGAACTACTACACCCCTGACCGCATGGTGCTTGCTGGGGTGGGCGTGGAGCATGAGCACCTAGTAGAATGTGCCAGAAAGTACCTCGTGGGAGCCGAGCCTGCCTGGGGAGCCCCTGGAACGGTGGACGTTGACAGATCAGTGGCACAGTACACTGGGGGGATCATCAAGGTGGAAAGAGACATGTCAAATGTCAGCCTTGGCCCAACCCCAATTCCAGAGCTCACACACATCATGGTGGGACTGGAGAGCTGTTCCTTCCTGGAGGACGACTTCATCCCCTTTGCTGTGCTGAATATGATGATGGGAGGAGGGGGCTCCTTCTCAGCTGGAGGGCCTGGCAAAGGCATGTTCTCCAGGCTCTACCTCAATGTGCTCAATCGGCACCACTGGATGTACAATGCAACCTCCTACCACCACAGCTATGAAGATACAGGCCTCCTGTGCATTCATGCCAGCGCAGACCCAAGACAAGTTCGAGAAATGGTAGAAATCATCACAAAGGAGTTTATCTTGATGGGCAGGACGGTGGATTTG
Peptide sequence:
MYAVSADSKGLDTVVDLLADVVLHPRLTDEEIEMTRMAVQFELEDLNMRPDPEPLLTEMIHEAAFRENTVGLHRFCPVENIAKIDREVLHSYLKNYYTPDRMVLAGVGVEHEHLVECARKYLVGAEPAWGAPGTVDVDRSVAQYTGGIIKVERDMSNVSLGPTPIPELTHIMVGLESCSFLEDDFIPFAVLNMMMGGGGSFSAGGPGKGMFSRLYLNVLNRHHWMYNATSYHHSYEDTGLLCIHASADPRQVREMVEIITKEFILMGRTVDLSTARFDSKDEILLTLEKHGGICDCQTSRDTTMYAVSADSKGLDTVVDLLADVVLHPRLTDEEIEMTRMAVQFELEDLNMRPDPEPLLTEMIHEAAFRENTVGLHRFCPVENIAKIDREVLHSYLKNYYTPDRMVLAGVGVEHEHLVECARKYLVGAEPAWGAPGTVDVDRSVAQYTGGIIKVERDMSNVSLGPTPIPELTHIMVGLESCSFLEDDFIPFAVLNMMMGGGGSFSAGGPGKGMFSRLYLNVLNRHHWMYNATSYHHSYEDTGLLCIHASADPRQVREMVEIITKEFILMGRTVDL
IRESfinder result
IRESfinder score
0.390974496
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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