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mmu_circPan3_792
Basic information of circular RNA
PanCircBase ID:
mmu_circPan3_792
mm39_Chr. Position ID:
chr5|147456314|147464040|+
Gene name:
Pan3
Transcript:
ENSMUST00000031651.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
6,7,8,9,10,11
Exon/intron offsets:
0,2325,3671,7014,7420,7624
Genomic length:
7726
Exon/intron sizes in nt:
24,81,05,58,16,21,17,100
Flanking exon/introns:
chr5:147425068-147456314|chr5:147464040-147466764
Splice length:
792
Other database IDs:
CIRCpedia: MMU_CIRCpedia_9793, circAtlas: mmu-Pan3_0008
circBase: hsa_circ_0100181, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_10483
Human Ortholog IDs:
Mature spliced Sequence:
GAATGTCACTGTCTGCTGGATCTTCCCCTCTCCATTCCCCCAAAATTACTCCACACACCTCTCCTGCTCCTAGAAGAAGAAGCCACACTCCAAACCCAGCAAGTTTCATGGTGCCGCCTAGTGCCTCCACTCCTGCCAATAACCCTGCTCCTCAGCCTCCGTCCTCTGGTCAGGTGATCCAGAAGGAGACTGTCGGGGGGACGACTTACTTCTATACAGATACAACCCCAGCACCTTTGACTGGAATGGTATTTCCAAACTATCATATTTATCCTCCAACCGCACCTCATGTTGCTTATATGCAACCAAAAGCAAATGCACCTTCCTTCTTCATGGCCGACGAGCTCCGACAGGAGCTGATCAACAGACATTTAATAACGATGGCTCAAATTGACCAAGCAGATATGCCAGCAGTCCCCACAGAAGTTGACAGCTACCATAGCCTGTTCCCTCTAGAACCACTGCCACCTCCCAACCGGATACAGAAATCAAGTAATTTTGGATATATCACGTCTTGCTACAAAGCTGTAAATAGCAAAGATGATCTGCCATATTGCCTTCGGAGGATACATGGTTTTCGTCTTGTTAACACAAAGTGCATGGTGTTGGTTGATATGTGGAAAAAAATTCAGCACTCAAATATTGTAACTCTGCGTGAAGTGTTTACCACTAAAGCATTTGCCGAGCCTTCTCTGGTGTTCGCCTATGATTTCCATGCTGGAGGAGAAACTATGATGAGCAGACACTTTAACGACCCGAATTCTGATGCCTACTTCACAAAGAGGAAGTGGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGACCCGAATTCTGATGCCT
60.18
CTGGGTTTGGAGTGTGGCTT
60.47
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACGACCCGAATTCTGATGCC
60.46
TGGGTTTGGAGTGTGGCTTC
60.47
140
PCR template sequence:
CTGGTGTTCGCCTATGATTTCCATGCTGGAGGAGAAACTATGATGAGCAGACACTTTAACGACCCGAATTCTGATGCCTACTTCACAAAGAGGAAGTGGGGAATGTCACTGTCTGCTGGATCTTCCCCTCTCCATTCCCCCAAAATTACTCCACACACCTCTCCTGCTCCTAGAAGAAGAAGCCACACTCCAAACCCAGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-140-5p(1), mmu-miR-30e-5p(1), mmu-miR-34a-5p(1), mmu-miR-30a-5p(1), mmu-miR-30c-5p(1), mmu-miR-18a-5p(1), mmu-miR-184-3p(1), mmu-miR-30b-5p(1), mmu-miR-705(1), mmu-miR-452-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AAGAGGAAGTGGGGAATGTCACTGTC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPAN3_792_ORF_1
1.0721
0.079706803
0.999785825
1581
ORF sequence:
ATGTCACTGTCTGCTGGATCTTCCCCTCTCCATTCCCCCAAAATTACTCCACACACCTCTCCTGCTCCTAGAAGAAGAAGCCACACTCCAAACCCAGCAAGTTTCATGGTGCCGCCTAGTGCCTCCACTCCTGCCAATAACCCTGCTCCTCAGCCTCCGTCCTCTGGTCAGGTGATCCAGAAGGAGACTGTCGGGGGGACGACTTACTTCTATACAGATACAACCCCAGCACCTTTGACTGGAATGGTATTTCCAAACTATCATATTTATCCTCCAACCGCACCTCATGTTGCTTATATGCAACCAAAAGCAAATGCACCTTCCTTCTTCATGGCCGACGAGCTCCGACAGGAGCTGATCAACAGACATTTAATAACGATGGCTCAAATTGACCAAGCAGATATGCCAGCAGTCCCCACAGAAGTTGACAGCTACCATAGCCTGTTCCCTCTAGAACCACTGCCACCTCCCAACCGGATACAGAAATCAAGTAATTTTGGATATATCACGTCTTGCTACAAAGCTGTAAATAGCAAAGATGATCTGCCATATTGCCTTCGGAGGATACATGGTTTTCGTCTTGTTAACACAAAGTGCATGGTGTTGGTTGATATGTGGAAAAAAATTCAGCACTCAAATATTGTAACTCTGCGTGAAGTGTTTACCACTAAAGCATTTGCCGAGCCTTCTCTGGTGTTCGCCTATGATTTCCATGCTGGAGGAGAAACTATGATGAGCAGACACTTTAACGACCCGAATTCTGATGCCTACTTCACAAAGAGGAAGTGGGGAATGTCACTGTCTGCTGGATCTTCCCCTCTCCATTCCCCCAAAATTACTCCACACACCTCTCCTGCTCCTAGAAGAAGAAGCCACACTCCAAACCCAGCAAGTTTCATGGTGCCGCCTAGTGCCTCCACTCCTGCCAATAACCCTGCTCCTCAGCCTCCGTCCTCTGGTCAGGTGATCCAGAAGGAGACTGTCGGGGGGACGACTTACTTCTATACAGATACAACCCCAGCACCTTTGACTGGAATGGTATTTCCAAACTATCATATTTATCCTCCAACCGCACCTCATGTTGCTTATATGCAACCAAAAGCAAATGCACCTTCCTTCTTCATGGCCGACGAGCTCCGACAGGAGCTGATCAACAGACATTTAATAACGATGGCTCAAATTGACCAAGCAGATATGCCAGCAGTCCCCACAGAAGTTGACAGCTACCATAGCCTGTTCCCTCTAGAACCACTGCCACCTCCCAACCGGATACAGAAATCAAGTAATTTTGGATATATCACGTCTTGCTACAAAGCTGTAAATAGCAAAGATGATCTGCCATATTGCCTTCGGAGGATACATGGTTTTCGTCTTGTTAACACAAAGTGCATGGTGTTGGTTGATATGTGGAAAAAAATTCAGCACTCAAATATTGTAACTCTGCGTGAAGTGTTTACCACTAAAGCATTTGCCGAGCCTTCTCTGGTGTTCGCCTATGATTTCCATGCTGGAGGAGAAACTATGATGAGCAGACACTTTAACGACCCGAATTCTGATGCCTACTTCACAAAGAGGAAGTGG
Peptide sequence:
MSLSAGSSPLHSPKITPHTSPAPRRRSHTPNPASFMVPPSASTPANNPAPQPPSSGQVIQKETVGGTTYFYTDTTPAPLTGMVFPNYHIYPPTAPHVAYMQPKANAPSFFMADELRQELINRHLITMAQIDQADMPAVPTEVDSYHSLFPLEPLPPPNRIQKSSNFGYITSCYKAVNSKDDLPYCLRRIHGFRLVNTKCMVLVDMWKKIQHSNIVTLREVFTTKAFAEPSLVFAYDFHAGGETMMSRHFNDPNSDAYFTKRKWGMSLSAGSSPLHSPKITPHTSPAPRRRSHTPNPASFMVPPSASTPANNPAPQPPSSGQVIQKETVGGTTYFYTDTTPAPLTGMVFPNYHIYPPTAPHVAYMQPKANAPSFFMADELRQELINRHLITMAQIDQADMPAVPTEVDSYHSLFPLEPLPPPNRIQKSSNFGYITSCYKAVNSKDDLPYCLRRIHGFRLVNTKCMVLVDMWKKIQHSNIVTLREVFTTKAFAEPSLVFAYDFHAGGETMMSRHFNDPNSDAYFTKRKW
IRESfinder result
IRESfinder score
0.627784123
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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