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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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