top of page
mmu_circEro1b_403
Basic information of circular RNA
PanCircBase ID:
mmu_circEro1b_403
mm39_Chr. Position ID:
chr13|12589700|12598491|+
Gene name:
Ero1b
Transcript:
ENSMUST00000221560.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
2,3,4,5,6
Exon/intron offsets:
0,4356,5554,6849,8717
Genomic length:
8791
Exon/intron sizes in nt:
120,84,42,83,74
Flanking exon/introns:
chr13:12581059-12589700|chr13:12598491-12605641
Splice length:
403
Other database IDs:
CIRCpedia: MMU_CIRCpedia_6538, circAtlas: mmu-Ero1lb_0002
circBase: hsa_circ_0112565, circAtlas: hsa-ERO1B_0002, CIRCpedia: HSA_CIRCpedia_140474
Human Ortholog IDs:
Mature spliced Sequence:
GTGACTGGAGTTCTGGATGATTGCTTATGTGACATTGACAGCATTGATAAATTCAACACCTACAAAATCTTTCCCAAAATAAAGAAGTTACAAGAACGAGACTATTTTCGTTATTACAAGGTTAATCTGAAACGACCATGTCCTTTCTGGGCAGAAGATGGCCACTGCTCAATAAAAGACTGTCATGTGGAGCCCTGTCCAGAAAGTAAAATTCCAGTTGGAATTAAAGCCGGGCGTTCAAATAAGTACTCGCAAGCAGCAAACAGCACCAAAGAACTGGATGACTGTGAGCAGGCTAACAAACTGGGCGCCATCAACAGCACGCTAAGTAACGAAAGCAAAGAAGCGTTCATTGACTGGGCGAGATATGATGATTCGCAGGACCACTTTTGTGAACTTGATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCCATCAACAGCACGCTAAG
59.9
TCAATGCTGTCAATGTCACA
55.58
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCCATCAACAGCACGCTAAG
59.9
CAATGCTGTCAATGTCACATAAGC
59.2
140
PCR template sequence:
CTGGGCGCCATCAACAGCACGCTAAGTAACGAAAGCAAAGAAGCGTTCATTGACTGGGCGAGATATGATGATTCGCAGGACCACTTTTGTGAACTTGATGGTGACTGGAGTTCTGGATGATTGCTTATGTGACATTGACAGCATTGATAAATTCAACACCTACAAAATCTTTCCCAAAATAAAGAAGTTACAAGAACGAG
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-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-325-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGTGAACTTGATGGTGACTGGAGTTC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCERO1B_403_ORF_1
0.8467
0.22561589
0.597674101
438
ORF sequence:
ATGATGATTCGCAGGACCACTTTTGTGAACTTGATGGTGACTGGAGTTCTGGATGATTGCTTATGTGACATTGACAGCATTGATAAATTCAACACCTACAAAATCTTTCCCAAAATAAAGAAGTTACAAGAACGAGACTATTTTCGTTATTACAAGGTTAATCTGAAACGACCATGTCCTTTCTGGGCAGAAGATGGCCACTGCTCAATAAAAGACTGTCATGTGGAGCCCTGTCCAGAAAGTAAAATTCCAGTTGGAATTAAAGCCGGGCGTTCAAATAAGTACTCGCAAGCAGCAAACAGCACCAAAGAACTGGATGACTGTGAGCAGGCTAACAAACTGGGCGCCATCAACAGCACGCTAAGTAACGAAAGCAAAGAAGCGTTCATTGACTGGGCGAGATATGATGATTCGCAGGACCACTTTTGTGAACTTGAT
Peptide sequence:
MMIRRTTFVNLMVTGVLDDCLCDIDSIDKFNTYKIFPKIKKLQERDYFRYYKVNLKRPCPFWAEDGHCSIKDCHVEPCPESKIPVGIKAGRSNKYSQAANSTKELDDCEQANKLGAINSTLSNESKEAFIDWARYDDSQDHFCELD
IRESfinder result
IRESfinder score
0.570654215
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page