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mmu_circBaz2b_1250
Basic information of circular RNA
PanCircBase ID:
mmu_circBaz2b_1250
mm39_Chr. Position ID:
chr2|59742025|59744539|-
Gene name:
Baz2b
Transcript:
ENSMUST00000112550.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
29,28,27,26
Exon/intron offsets:
0,720,1047,1858
Genomic length:
2514
Exon/intron sizes in nt:
1,61,15,62,77,656
Flanking exon/introns:
chr2:59738093-59742025|chr2:59744539-59747697
Splice length:
1250
Other database IDs:
circBase: hsa_circ_0117771, circAtlas: hsa-BAZ2B_0025, CIRCpedia: HSA_CIRCpedia_92956
Human Ortholog IDs:
Mature spliced Sequence:
GCCTAGAAGAAATTGCAAAAGAAAAAGAAAAGCTTAAAAAGGCAGAGAGTCTCCAGATCAAAGAAGAAGTATTTGAGACTTCTGCGGAGACATTAAACTGTTCCATTAGAGATCACTGCGAGCAGAAAGACGACCCAAAAGAGAAAGATAACACAAATCTATTTCTTCAGAAACCAGGCTCTTTCTCCAAGTTAAGCAAGCTTTTAGAGGTAGCTAAAATGCCTCCTGAGTCAGATGTTATGACCCCCCCAAAAGTGAATGTTAGTACAAACGGGGGCCCACTGTCTCATCAGAACAGCGGGAAGCATCCACTGGGGAGCGTTCCCTCAGCAACAACAGCACAAAGCCCCGTGGGAAAGACAGACGCCAGTCTCTTTAGCTCAGGCTCCGGCAGTTGTGGGAAGTTCTACAGTCCTCTCCCCAATGACCAGCTGTTAAAAACACTGACTGAAAAGAACAGACAGTGGTTTAGCCTTTTGCCAAAAACACCTTGCGATGACACGTCCCTGACCCACGCTGACCTGTCCACCACTCTGGTGACTCCTCAGTCTCAGCCACCATCTAAGTCACCTTCGCCGGCCCCAGCTGCACTGCTCGGACCCTCTTCTGTTCAGAGCCCCCCTGGACTGAACCCGTTTGCTCTGTCGCCTCTTCAGGTGAAAGGTGGTGTGTCTATGATGGGACTTCAGTTCTGTGGGTGGCCTGCTGGAGTGCTCGCTTCCAACGTCCCATTTACATCACCTTTGCCTGCTCTCGGCTCAGGGTTGGGACTGCCAGAAGGAAATGGCAGTAGTTCATTCTTGACTTCCAGTGTTGCTTCAAGTAAAAGTGACTCTCCAGTCCCTCCAGCTGAAAGACCCTCCAGCGCTCAGCCAGTGGCTGTTGAAGTAGCAAAGCCAGTAGATTTTCCTAGTCCCAAACCTATCCCAGAAGAAATGCAGTTCGGATGGTGGAGAATCATTGACCCCGAGGACCTGAAGACATTGCTCAAAGTGCTGCACCTCCGCGGGATCCGGGAAAAGGCATTGCAAAAGCAAATTCAGAAACACTTGGATTACATTACCCAAGCCTGTGTCAGGAACAAGGACGTCGCTATTATTGAATTAAACGAAAATGAAGACAATCAGGTAACCCGCGATCTAGTGGAGAACTGGTCGGTCGAAGAGCAAGCAATGGAGCTGGACCTGAGCATACTCCAGCAGGTGGAGGACTTGGAACGGAGGGTTGCATCAGCGAGTTTGCAAGTGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTGGAGGACTTGGAACGGAG
60.04
TGTCTCCGCAGAAGTCTCAA
58.67
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGAAGAGCAAGCAATGGAGC
59.9
TGATCTGGAGACTCTCTGCCT
59.71
151
PCR template sequence:
CTGGTCGGTCGAAGAGCAAGCAATGGAGCTGGACCTGAGCATACTCCAGCAGGTGGAGGACTTGGAACGGAGGGTTGCATCAGCGAGTTTGCAAGTGAAGGCCTAGAAGAAATTGCAAAAGAAAAAGAAAAGCTTAAAAAGGCAGAGAGTCTCCAGATCAAAGAAGAAGTATTTGAGACTTCTGCGGAGACATTAAACTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
13
Interacting miRNAs (#binding sites)
mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-146a-5p(1), mmu-miR-181b-5p(1), mmu-miR-214-3p(1), mmu-miR-127-3p(1), mmu-miR-182-5p(1), mmu-miR-370-3p(1), mmu-miR-690(1), mmu-miR-29b-2-5p(1), mmu-miR-188-3p(1), mmu-miR-146b-5p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TTTGCAAGTGAAGGCCTAGAAGAAAT
siRNA sets
ATTTCTTCTAGGCCTTCAC,TTTCTTCTAGGCCTTCACT,CTTCTAGGCCTTCACTTGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBAZ2B_1250_ORF_1
0.8879
0.162820677
0.98907681
1038
ORF sequence:
ATGCCTCCTGAGTCAGATGTTATGACCCCCCCAAAAGTGAATGTTAGTACAAACGGGGGCCCACTGTCTCATCAGAACAGCGGGAAGCATCCACTGGGGAGCGTTCCCTCAGCAACAACAGCACAAAGCCCCGTGGGAAAGACAGACGCCAGTCTCTTTAGCTCAGGCTCCGGCAGTTGTGGGAAGTTCTACAGTCCTCTCCCCAATGACCAGCTGTTAAAAACACTGACTGAAAAGAACAGACAGTGGTTTAGCCTTTTGCCAAAAACACCTTGCGATGACACGTCCCTGACCCACGCTGACCTGTCCACCACTCTGGTGACTCCTCAGTCTCAGCCACCATCTAAGTCACCTTCGCCGGCCCCAGCTGCACTGCTCGGACCCTCTTCTGTTCAGAGCCCCCCTGGACTGAACCCGTTTGCTCTGTCGCCTCTTCAGGTGAAAGGTGGTGTGTCTATGATGGGACTTCAGTTCTGTGGGTGGCCTGCTGGAGTGCTCGCTTCCAACGTCCCATTTACATCACCTTTGCCTGCTCTCGGCTCAGGGTTGGGACTGCCAGAAGGAAATGGCAGTAGTTCATTCTTGACTTCCAGTGTTGCTTCAAGTAAAAGTGACTCTCCAGTCCCTCCAGCTGAAAGACCCTCCAGCGCTCAGCCAGTGGCTGTTGAAGTAGCAAAGCCAGTAGATTTTCCTAGTCCCAAACCTATCCCAGAAGAAATGCAGTTCGGATGGTGGAGAATCATTGACCCCGAGGACCTGAAGACATTGCTCAAAGTGCTGCACCTCCGCGGGATCCGGGAAAAGGCATTGCAAAAGCAAATTCAGAAACACTTGGATTACATTACCCAAGCCTGTGTCAGGAACAAGGACGTCGCTATTATTGAATTAAACGAAAATGAAGACAATCAGGTAACCCGCGATCTAGTGGAGAACTGGTCGGTCGAAGAGCAAGCAATGGAGCTGGACCTGAGCATACTCCAGCAGGTGGAGGACTTGGAACGGAGGGTTGCATCAGCGAGTTTGCAAGTGAAGGCCTAG
Peptide sequence:
MPPESDVMTPPKVNVSTNGGPLSHQNSGKHPLGSVPSATTAQSPVGKTDASLFSSGSGSCGKFYSPLPNDQLLKTLTEKNRQWFSLLPKTPCDDTSLTHADLSTTLVTPQSQPPSKSPSPAPAALLGPSSVQSPPGLNPFALSPLQVKGGVSMMGLQFCGWPAGVLASNVPFTSPLPALGSGLGLPEGNGSSSFLTSSVASSKSDSPVPPAERPSSAQPVAVEVAKPVDFPSPKPIPEEMQFGWWRIIDPEDLKTLLKVLHLRGIREKALQKQIQKHLDYITQACVRNKDVAIIELNENEDNQVTRDLVENWSVEEQAMELDLSILQQVEDLERRVASASLQVKA
IRESfinder result
IRESfinder score
0.548212016
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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