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mmu_circPard3_1343
Basic information of circular RNA
PanCircBase ID:
mmu_circPard3_1343
mm39_Chr. Position ID:
chr8|128125080|128201096|+
Gene name:
Pard3
Transcript:
ENSMUST00000162309.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
15,16,17,18,19,20,21,22
Exon/intron offsets:
0,6775,10956,12129,16970,27922,61674,75779
Genomic length:
76016
Exon/intron sizes in nt:
15,11,90,14,94,52,28,20,00,00,000
Flanking exon/introns:
chr8:128115979-128125080|chr8:128201096-128319541
Splice length:
1343
Other database IDs:
circBase: hsa_circ_0018170, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_1537
Human Ortholog IDs:
Mature spliced Sequence:
CTGCGGTCTCCTGGGAGCCCTGCTGCACCTGAGCTGCCCATCGAGACAGAACTGGATGACCGAGAACGCAGGATCTCACACTCCCTCTACAGTGGGATCGAGGGGCTGGATGAGTCGCCCACCAGGAACGCAGCACTGAGCAGGATAATGGGTAAATGCCAGCTGTCCCCCACGGTGAACATGCCTCACGATGACACTGTCATGATTGAAGATGACAGGCTGCCTGTGCTCCCTCCTCACCTCTCTGACCAGTCCTCCTCCAGCTCCCATGATGACGTTGGATTCATAATGACAGAAGCAGGCACGTGGGCCAAAGCTACCATCAGTGACTCAGCCGACTGCTCATTGAGTCCAGATGTTGATCCGGTTCTCGCTTTTCAACGGGAAGGATTTGGACGCCAGAGTATGTCAGAAAAACGCACAAAGCAATTTTCAGATGCCAGTCAATTGGATTTCGTTAAAACACGAAAATCAAAAAGCATGGATTTAGTAGCTGACGAGACTAAACTCAATACAGTGGATGACCAGAGAGCAGGCTCTCCCAGTAGAGATGTGGGACCCTCCTTAGGTCTGAAGAAATCTAGCTCCTTAGAAAGTCTGCAGACCGCTGTCGCCGAGGTGACGCTGAACGGGAACATTCCTTTCCACCGCCCTCGGCCACGAATCATCCGGGGAAGGGGCTGCAACGAAAGCTTCAGAGCCGCCATTGACAAGTCCTACGACAAGCCCATGGTTGATGATGACGACGAAGGCATGGAGACCTTGGAAGAAGACACAGAGGAAAGCTCGAGGTCAGGGAGGGAGTCCGTGTCCACGTCCAGCGATCAGCCTTCCTATTCTCTGGAGAGGCAAATGAATGGAGACCCAGAGAAAAGGGACAAGACAGAGAGGAAAAAGGACAAAGCCGGAAAGGATAAGAAGAAAGACCGAGAGAAGGAGAAGGATAAACTGAAAGCCAAGAAGGGGATGCTGAAAGGCTTGGGGGACATGTTCAGGTTTGGCAAACATCGAAAAGATGACAAGATGGAAAAAATGGGTCGAATAAAAATCCAGGATTCTTTCACCTCAGAAGAGGACAGGGTGCGGATGAAGGAAGAACAGGAGAGGATTCAAGCCAAAACTCGAGAGTTTAGGGAGCGGCAAGCCCGAGAGCGTGACTATGCAGAGATCCAAGATTTCCATCGGACGTTTGGCTGTGATGACGAGTTGCTGTATGGGGGCATGTCATCCTATGAAGGCTGCTTGGCTCTCAATGCCAGACCCCAGAGCCCAAGAGAAGGGCACCTGATGGACACTTTGTATGCCCAAGTAAAGAAACCTCGGAGCTCCAAACCTGGAGACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTCAATGCCAGACCCCAGAG
60.11
ATCCTGCGTTCTCGGTCATC
59.9
169
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTCAATGCCAGACCCCAGAG
60.11
GATCCTGCGTTCTCGGTCAT
59.9
170
PCR template sequence:
TGGCTCTCAATGCCAGACCCCAGAGCCCAAGAGAAGGGCACCTGATGGACACTTTGTATGCCCAAGTAAAGAAACCTCGGAGCTCCAAACCTGGAGACAGCTGCGGTCTCCTGGGAGCCCTGCTGCACCTGAGCTGCCCATCGAGACAGAACTGGATGACCGAGAACGCAGGATCTCACACTCCCTCTACAGTGGGATCG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
14
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-150-5p(1), mmu-miR-122-5p(1), mmu-miR-205-5p(1), mmu-miR-324-5p(1), mmu-miR-326-3p(1), mmu-miR-339-5p(1), mmu-miR-24-3p(1), mmu-miR-136-5p(1), mmu-miR-153-3p(1), mmu-miR-705(1), mmu-miR-207(1), mmu-miR-673-5p(1), mmu-miR-574-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AACCTGGAGACAGCTGCGGTCTCCTG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPARD3_1343_ORF_1
0.7847
0.337692535
0.999229599
1335
ORF sequence:
ATGGGTAAATGCCAGCTGTCCCCCACGGTGAACATGCCTCACGATGACACTGTCATGATTGAAGATGACAGGCTGCCTGTGCTCCCTCCTCACCTCTCTGACCAGTCCTCCTCCAGCTCCCATGATGACGTTGGATTCATAATGACAGAAGCAGGCACGTGGGCCAAAGCTACCATCAGTGACTCAGCCGACTGCTCATTGAGTCCAGATGTTGATCCGGTTCTCGCTTTTCAACGGGAAGGATTTGGACGCCAGAGTATGTCAGAAAAACGCACAAAGCAATTTTCAGATGCCAGTCAATTGGATTTCGTTAAAACACGAAAATCAAAAAGCATGGATTTAGTAGCTGACGAGACTAAACTCAATACAGTGGATGACCAGAGAGCAGGCTCTCCCAGTAGAGATGTGGGACCCTCCTTAGGTCTGAAGAAATCTAGCTCCTTAGAAAGTCTGCAGACCGCTGTCGCCGAGGTGACGCTGAACGGGAACATTCCTTTCCACCGCCCTCGGCCACGAATCATCCGGGGAAGGGGCTGCAACGAAAGCTTCAGAGCCGCCATTGACAAGTCCTACGACAAGCCCATGGTTGATGATGACGACGAAGGCATGGAGACCTTGGAAGAAGACACAGAGGAAAGCTCGAGGTCAGGGAGGGAGTCCGTGTCCACGTCCAGCGATCAGCCTTCCTATTCTCTGGAGAGGCAAATGAATGGAGACCCAGAGAAAAGGGACAAGACAGAGAGGAAAAAGGACAAAGCCGGAAAGGATAAGAAGAAAGACCGAGAGAAGGAGAAGGATAAACTGAAAGCCAAGAAGGGGATGCTGAAAGGCTTGGGGGACATGTTCAGGTTTGGCAAACATCGAAAAGATGACAAGATGGAAAAAATGGGTCGAATAAAAATCCAGGATTCTTTCACCTCAGAAGAGGACAGGGTGCGGATGAAGGAAGAACAGGAGAGGATTCAAGCCAAAACTCGAGAGTTTAGGGAGCGGCAAGCCCGAGAGCGTGACTATGCAGAGATCCAAGATTTCCATCGGACGTTTGGCTGTGATGACGAGTTGCTGTATGGGGGCATGTCATCCTATGAAGGCTGCTTGGCTCTCAATGCCAGACCCCAGAGCCCAAGAGAAGGGCACCTGATGGACACTTTGTATGCCCAAGTAAAGAAACCTCGGAGCTCCAAACCTGGAGACAGCTGCGGTCTCCTGGGAGCCCTGCTGCACCTGAGCTGCCCATCGAGACAGAACTGGATGACCGAGAACGCAGGATCTCACACTCCCTCTACAGTGGGATCGAGGGGCTGGATGAGTCGCCCACCAGGAACGCAGCACTGA
Peptide sequence:
MGKCQLSPTVNMPHDDTVMIEDDRLPVLPPHLSDQSSSSSHDDVGFIMTEAGTWAKATISDSADCSLSPDVDPVLAFQREGFGRQSMSEKRTKQFSDASQLDFVKTRKSKSMDLVADETKLNTVDDQRAGSPSRDVGPSLGLKKSSSLESLQTAVAEVTLNGNIPFHRPRPRIIRGRGCNESFRAAIDKSYDKPMVDDDDEGMETLEEDTEESSRSGRESVSTSSDQPSYSLERQMNGDPEKRDKTERKKDKAGKDKKKDREKEKDKLKAKKGMLKGLGDMFRFGKHRKDDKMEKMGRIKIQDSFTSEEDRVRMKEEQERIQAKTREFRERQARERDYAEIQDFHRTFGCDDELLYGGMSSYEGCLALNARPQSPREGHLMDTLYAQVKKPRSSKPGDSCGLLGALLHLSCPSRQNWMTENAGSHTPSTVGSRGWMSRPPGTQH
IRESfinder result
IRESfinder score
0.19568791
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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