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mmu_circPan3_861
Basic information of circular RNA
PanCircBase ID:
mmu_circPan3_861
mm39_Chr. Position ID:
chr5|147466764|147482545|+
Gene name:
Pan3
Transcript:
ENSMUST00000031651.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
12,13,14,15,16,17,18
Exon/intron offsets:
0,1262,6446,9288,9787,13115,15651
Genomic length:
15781
Exon/intron sizes in nt:
16,69,11,40,13,06,51,30,000
Flanking exon/introns:
chr5:147464040-147466764|chr5:147482545-147483174
Splice length:
861
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GCCAGCACGATGGACCACTGCCCAGGCAGCATGCTGGATTGTTACCAGAGTCTCTCATCTGGGCATACATTGTACAGCTGAGTTCTGCTCTGCGGACCATTCATACAGCAGGTTTGGCCTGTAGAGTAATGGACCCAACGAAGATTCTGATAACCAGCAAAACAAGGTTACGAGTAAATTGTGTAGGAGTCTTTGATGTTTTAACATTTGATAACAGTCAAAATAATAATCCTTTGGCATTAATGGCTCAGTACCAGCAAGCAGATCTGATATCATTAGGAAAAGTTGTGTTGGCTTTGGCTTGCAACTCTTTGGCAGGAATTCAGCGAGAAAATTTACAGAAAGCCATGGAATTGGTGACAATCAACTACTCCTCTGACCTGAAGAACCTCATCTTGTACTTGTTGACTGACCAAAACAGGATGCGGAGTGTGAATGACATCATGCCCATGATTGGTGCTCGGTTTTACACTCAATTGGATGCTGCTCAAATGAGAAATGATGTTATCGAGGAAGACCTTGCTAAGGAGGTTCAAAATGGAAGACTGTTTAGGCTTCTAGCAAAATTGGGAACAATCAACGAGAGGCCGGAGTTTCAGAAGGATCCAACCTGGTCAGAGACTGGAGACAGATACCTGTTGAAACTCTTTAGAGATCATCTTTTTCATCAGGTGACAGAAGCAGGTGCTCCCTGGATCGACCTCAGTCACATCATTTCTTGTCTTAACAAGCTAGATGCTGGTGTGCCAGAAAAAATCAGCCTGATTTCCAGAGACGAGAAGAGCGTGCTGGTGGTGACATACAGTGACCTAAAACGCTGCTTTGAAAATACCTTTCAAGAACTGATTGCGGCTGCAAATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCCAGAGACGAGAAGAGCGT
60.32
GGTAACAATCCAGCATGCTGC
60.2
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCAGAGACGAGAAGAGCGTG
60.18
TGCCCAGATGAGAGACTCTG
58.52
158
PCR template sequence:
CTGATTTCCAGAGACGAGAAGAGCGTGCTGGTGGTGACATACAGTGACCTAAAACGCTGCTTTGAAAATACCTTTCAAGAACTGATTGCGGCTGCAAATGGCCAGCACGATGGACCACTGCCCAGGCAGCATGCTGGATTGTTACCAGAGTCTCTCATCTGGGCATACATTGTACAGCTGAGTTCTGCTCTGCGGACCAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-134-5p(1), mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-135a-5p(1), mmu-miR-212-3p(1), mmu-miR-297a-5p(1), mmu-miR-540-3p(1), mmu-miR-544-5p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GCGGCTGCAAATGGCCAGCACGATGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPAN3_861_ORF_1
0.9906
0.153315063
0.999830291
1593
ORF sequence:
ATGGACCCAACGAAGATTCTGATAACCAGCAAAACAAGGTTACGAGTAAATTGTGTAGGAGTCTTTGATGTTTTAACATTTGATAACAGTCAAAATAATAATCCTTTGGCATTAATGGCTCAGTACCAGCAAGCAGATCTGATATCATTAGGAAAAGTTGTGTTGGCTTTGGCTTGCAACTCTTTGGCAGGAATTCAGCGAGAAAATTTACAGAAAGCCATGGAATTGGTGACAATCAACTACTCCTCTGACCTGAAGAACCTCATCTTGTACTTGTTGACTGACCAAAACAGGATGCGGAGTGTGAATGACATCATGCCCATGATTGGTGCTCGGTTTTACACTCAATTGGATGCTGCTCAAATGAGAAATGATGTTATCGAGGAAGACCTTGCTAAGGAGGTTCAAAATGGAAGACTGTTTAGGCTTCTAGCAAAATTGGGAACAATCAACGAGAGGCCGGAGTTTCAGAAGGATCCAACCTGGTCAGAGACTGGAGACAGATACCTGTTGAAACTCTTTAGAGATCATCTTTTTCATCAGGTGACAGAAGCAGGTGCTCCCTGGATCGACCTCAGTCACATCATTTCTTGTCTTAACAAGCTAGATGCTGGTGTGCCAGAAAAAATCAGCCTGATTTCCAGAGACGAGAAGAGCGTGCTGGTGGTGACATACAGTGACCTAAAACGCTGCTTTGAAAATACCTTTCAAGAACTGATTGCGGCTGCAAATGGCCAGCACGATGGACCACTGCCCAGGCAGCATGCTGGATTGTTACCAGAGTCTCTCATCTGGGCATACATTGTACAGCTGAGTTCTGCTCTGCGGACCATTCATACAGCAGGTTTGGCCTGTAGAGTAATGGACCCAACGAAGATTCTGATAACCAGCAAAACAAGGTTACGAGTAAATTGTGTAGGAGTCTTTGATGTTTTAACATTTGATAACAGTCAAAATAATAATCCTTTGGCATTAATGGCTCAGTACCAGCAAGCAGATCTGATATCATTAGGAAAAGTTGTGTTGGCTTTGGCTTGCAACTCTTTGGCAGGAATTCAGCGAGAAAATTTACAGAAAGCCATGGAATTGGTGACAATCAACTACTCCTCTGACCTGAAGAACCTCATCTTGTACTTGTTGACTGACCAAAACAGGATGCGGAGTGTGAATGACATCATGCCCATGATTGGTGCTCGGTTTTACACTCAATTGGATGCTGCTCAAATGAGAAATGATGTTATCGAGGAAGACCTTGCTAAGGAGGTTCAAAATGGAAGACTGTTTAGGCTTCTAGCAAAATTGGGAACAATCAACGAGAGGCCGGAGTTTCAGAAGGATCCAACCTGGTCAGAGACTGGAGACAGATACCTGTTGAAACTCTTTAGAGATCATCTTTTTCATCAGGTGACAGAAGCAGGTGCTCCCTGGATCGACCTCAGTCACATCATTTCTTGTCTTAACAAGCTAGATGCTGGTGTGCCAGAAAAAATCAGCCTGATTTCCAGAGACGAGAAGAGCGTGCTGGTGGTGACATACAGTGACCTAAAACGCTGCTTTGAAAATACCTTTCAAGAACTGATTGCGGCTGCAAAT
Peptide sequence:
MDPTKILITSKTRLRVNCVGVFDVLTFDNSQNNNPLALMAQYQQADLISLGKVVLALACNSLAGIQRENLQKAMELVTINYSSDLKNLILYLLTDQNRMRSVNDIMPMIGARFYTQLDAAQMRNDVIEEDLAKEVQNGRLFRLLAKLGTINERPEFQKDPTWSETGDRYLLKLFRDHLFHQVTEAGAPWIDLSHIISCLNKLDAGVPEKISLISRDEKSVLVVTYSDLKRCFENTFQELIAAANGQHDGPLPRQHAGLLPESLIWAYIVQLSSALRTIHTAGLACRVMDPTKILITSKTRLRVNCVGVFDVLTFDNSQNNNPLALMAQYQQADLISLGKVVLALACNSLAGIQRENLQKAMELVTINYSSDLKNLILYLLTDQNRMRSVNDIMPMIGARFYTQLDAAQMRNDVIEEDLAKEVQNGRLFRLLAKLGTINERPEFQKDPTWSETGDRYLLKLFRDHLFHQVTEAGAPWIDLSHIISCLNKLDAGVPEKISLISRDEKSVLVVTYSDLKRCFENTFQELIAAAN
IRESfinder result
IRESfinder score
0.624750986
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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