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mmu_circPolb_543
Basic information of circular RNA
PanCircBase ID:
mmu_circPolb_543
mm39_Chr. Position ID:
chr8|23120358|23132372|-
Gene name:
Polb
Transcript:
ENSMUST00000033938.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
13,12,11,10,9,8,7
Exon/intron offsets:
0,1112,6725,9591,10016,10170,11962
Genomic length:
12014
Exon/intron sizes in nt:
140,65,87,71,73,55,52
Flanking exon/introns:
chr8:23118385-23120358|chr8:23132372-23135060
Splice length:
543
Other database IDs:
circAtlas: mmu-Polb_0014
Human Ortholog IDs:
Mature spliced Sequence:
ATCTCAGGAAAAATGAAGATAAACTGAACCATCATCAACGAATTGGGCTGAAATATTTCGAGGACTTTGAAAAGAGAATTCCTCGTGAGGAAATGCTGCAGATGCAGGATATTGTACTTAATGAAATTAAAAAAGTGGACTCTGAGTACATTGCTACAGTCTGTGGCAGTTTCAGAAGAGGCGCAGAGTCGAGTGGAGACATGGATGTCCTGCTGACCCACCCAAACTTCACGTCAGAATCCAGCAAACAGCCAAAGTTGTTACATCGTGTTGTGGAACAGTTACAAAAAGTCCATTTCATTACAGATACTCTGTCAAAGGGTGAAACAAAGTTCATGGGTGTTTGCCAGCTTCCCAGCGAGAAGGATGGAAAGGAATATCCACACAGGAGAATCGATATCAGGTTGATCCCCAAAGATCAGTACTACTGTGGTGTTCTCTACTTCACTGGGAGTGACATCTTTAATAAGAACATGAGAGCGCACGCCCTGGAAAAGGGCTTCACAATCAATGAGTACACCATCCGCCCCCTGGGGGTCACTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TAAGAACATGAGAGCGCACG
58.37
TGCAGCATTTCCTCACGAG
58.15
177
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAGAACATGAGAGCGCACGC
61.63
TGCAGCATTTCCTCACGAG
58.15
176
PCR template sequence:
TTCACTGGGAGTGACATCTTTAATAAGAACATGAGAGCGCACGCCCTGGAAAAGGGCTTCACAATCAATGAGTACACCATCCGCCCCCTGGGGGTCACTGATCTCAGGAAAAATGAAGATAAACTGAACCATCATCAACGAATTGGGCTGAAATATTTCGAGGACTTTGAAAAGAGAATTCCTCGTGAGGAAATGCTGCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-214-3p(1), mmu-miR-199b-3p(1), mmu-miR-199a-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTGGGGGTCACTGATCTCAGGAAAAA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPOLB_543_ORF_1
1.1631
0.242723471
0.99364835
993
ORF sequence:
ATGCTGCAGATGCAGGATATTGTACTTAATGAAATTAAAAAAGTGGACTCTGAGTACATTGCTACAGTCTGTGGCAGTTTCAGAAGAGGCGCAGAGTCGAGTGGAGACATGGATGTCCTGCTGACCCACCCAAACTTCACGTCAGAATCCAGCAAACAGCCAAAGTTGTTACATCGTGTTGTGGAACAGTTACAAAAAGTCCATTTCATTACAGATACTCTGTCAAAGGGTGAAACAAAGTTCATGGGTGTTTGCCAGCTTCCCAGCGAGAAGGATGGAAAGGAATATCCACACAGGAGAATCGATATCAGGTTGATCCCCAAAGATCAGTACTACTGTGGTGTTCTCTACTTCACTGGGAGTGACATCTTTAATAAGAACATGAGAGCGCACGCCCTGGAAAAGGGCTTCACAATCAATGAGTACACCATCCGCCCCCTGGGGGTCACTGATCTCAGGAAAAATGAAGATAAACTGAACCATCATCAACGAATTGGGCTGAAATATTTCGAGGACTTTGAAAAGAGAATTCCTCGTGAGGAAATGCTGCAGATGCAGGATATTGTACTTAATGAAATTAAAAAAGTGGACTCTGAGTACATTGCTACAGTCTGTGGCAGTTTCAGAAGAGGCGCAGAGTCGAGTGGAGACATGGATGTCCTGCTGACCCACCCAAACTTCACGTCAGAATCCAGCAAACAGCCAAAGTTGTTACATCGTGTTGTGGAACAGTTACAAAAAGTCCATTTCATTACAGATACTCTGTCAAAGGGTGAAACAAAGTTCATGGGTGTTTGCCAGCTTCCCAGCGAGAAGGATGGAAAGGAATATCCACACAGGAGAATCGATATCAGGTTGATCCCCAAAGATCAGTACTACTGTGGTGTTCTCTACTTCACTGGGAGTGACATCTTTAATAAGAACATGAGAGCGCACGCCCTGGAAAAGGGCTTCACAATCAATGAGTACACCATCCGCCCCCTGGGGGTCACT
Peptide sequence:
MLQMQDIVLNEIKKVDSEYIATVCGSFRRGAESSGDMDVLLTHPNFTSESSKQPKLLHRVVEQLQKVHFITDTLSKGETKFMGVCQLPSEKDGKEYPHRRIDIRLIPKDQYYCGVLYFTGSDIFNKNMRAHALEKGFTINEYTIRPLGVTDLRKNEDKLNHHQRIGLKYFEDFEKRIPREEMLQMQDIVLNEIKKVDSEYIATVCGSFRRGAESSGDMDVLLTHPNFTSESSKQPKLLHRVVEQLQKVHFITDTLSKGETKFMGVCQLPSEKDGKEYPHRRIDIRLIPKDQYYCGVLYFTGSDIFNKNMRAHALEKGFTINEYTIRPLGVT
IRESfinder result
IRESfinder score
0.670616473
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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