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mmu_circEif3a_870
Basic information of circular RNA
PanCircBase ID:
mmu_circEif3a_870
mm39_Chr. Position ID:
chr19|60760081|60762455|-
Gene name:
Eif3a
Transcript:
ENSMUST00000025955.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
14,13,12,11,10
Exon/intron offsets:
0,449,1048,1863,2257
Genomic length:
2374
Exon/intron sizes in nt:
11,41,05,34,81,86,117
Flanking exon/introns:
chr19:60759575-60760081|chr19:60762455-60763730
Splice length:
870
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GTGGCACAGATTTATCAGAGCATTGAGTTTTCTCGTTTGACTTCTCTGGTTCCTTTTGTTGATGCTTTCCAACTGGAACGGGCCATAGTAGATGCAGCCAGGCACTGTGACCTGCAGGTACGTATTGACCATACTTCCCGGACTCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTTGGCCCTCATCTGCAGAGCATGCCTTCAGAGCAGATAAGAAACCAGCTCACGGCCATGTCCTCAGTGCTTGCCAAAGCACTTGAAGTCATCAGACCTGCTCACATTCTGCAAGAGAAAGAAGAACAGCATCAATTGGCAGTTAATGCATATCTTAAAAATTCAAGAAAAGAGCACCAGAGGATCCTGGCTCGGAGACAGACAATTGAGGAAAGAAAAGAGCGTCTTGAGAGTCTGAATATTCAACGTGAGAAGGAAGAACTCGAGCAGAGGGAAGCTGAACTCCAGAAAGTACGAAAGGCTGAAGAAGAAAGGCTGCGCCAAGAGGCAAAGGAGCGAGAGAAGGAACGAATCCTTCAAGAACACGAGCAAATCAAGAAGAAAACTGTTCGGGAGCGGTTAGAGCAGATCAAGAAGACAGAGCTGGGCGCCAAAGCATTTAAAGATATTGACATTGAAGACCTTGAAGAACTGGATCCAGATTTTATTATGGCCAAACAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAGATTGACTATTTTGAGAGAGCTAAGCGTTTGGAAGAAATTCCTTTAATAAAGAGTGCTTATGAGGAACAAAGGGTTAAAGACATGGACCTGTGGGAACAGCAAGAAGAAGAAAGA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TAAAGACATGGACCTGTGGGA
58.37
TGGCTGCATCTACTATGGCC
59.6
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGTGCTTATGAGGAACAAAGGGT
59.93
ACTATGGCCCGTTCCAGTTG
60.04
152
PCR template sequence:
GAGAGCTAAGCGTTTGGAAGAAATTCCTTTAATAAAGAGTGCTTATGAGGAACAAAGGGTTAAAGACATGGACCTGTGGGAACAGCAAGAAGAAGAAAGAGTGGCACAGATTTATCAGAGCATTGAGTTTTCTCGTTTGACTTCTCTGGTTCCTTTTGTTGATGCTTTCCAACTGGAACGGGCCATAGTAGATGCAGCCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-29b-1-5p(1), mmu-miR-22-3p(1), mmu-miR-680(1), mmu-miR-29b-2-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGAAGAAGAAAGAGTGGCACAGATTT
siRNA sets
AATCTGTGCCACTCTTTCT, AAATCTGTGCCACTCTTTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCEIF3A_870_ORF_1
1.2611
0.33561675
0.999921549
1527
ORF sequence:
ATGCCTTCAGAGCAGATAAGAAACCAGCTCACGGCCATGTCCTCAGTGCTTGCCAAAGCACTTGAAGTCATCAGACCTGCTCACATTCTGCAAGAGAAAGAAGAACAGCATCAATTGGCAGTTAATGCATATCTTAAAAATTCAAGAAAAGAGCACCAGAGGATCCTGGCTCGGAGACAGACAATTGAGGAAAGAAAAGAGCGTCTTGAGAGTCTGAATATTCAACGTGAGAAGGAAGAACTCGAGCAGAGGGAAGCTGAACTCCAGAAAGTACGAAAGGCTGAAGAAGAAAGGCTGCGCCAAGAGGCAAAGGAGCGAGAGAAGGAACGAATCCTTCAAGAACACGAGCAAATCAAGAAGAAAACTGTTCGGGAGCGGTTAGAGCAGATCAAGAAGACAGAGCTGGGCGCCAAAGCATTTAAAGATATTGACATTGAAGACCTTGAAGAACTGGATCCAGATTTTATTATGGCCAAACAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAGATTGACTATTTTGAGAGAGCTAAGCGTTTGGAAGAAATTCCTTTAATAAAGAGTGCTTATGAGGAACAAAGGGTTAAAGACATGGACCTGTGGGAACAGCAAGAAGAAGAAAGAGTGGCACAGATTTATCAGAGCATTGAGTTTTCTCGTTTGACTTCTCTGGTTCCTTTTGTTGATGCTTTCCAACTGGAACGGGCCATAGTAGATGCAGCCAGGCACTGTGACCTGCAGGTACGTATTGACCATACTTCCCGGACTCTGAGTTTTGGATCAGATTTGAATTATGCAACTCGAGAAGATGCCCCAGTTGGCCCTCATCTGCAGAGCATGCCTTCAGAGCAGATAAGAAACCAGCTCACGGCCATGTCCTCAGTGCTTGCCAAAGCACTTGAAGTCATCAGACCTGCTCACATTCTGCAAGAGAAAGAAGAACAGCATCAATTGGCAGTTAATGCATATCTTAAAAATTCAAGAAAAGAGCACCAGAGGATCCTGGCTCGGAGACAGACAATTGAGGAAAGAAAAGAGCGTCTTGAGAGTCTGAATATTCAACGTGAGAAGGAAGAACTCGAGCAGAGGGAAGCTGAACTCCAGAAAGTACGAAAGGCTGAAGAAGAAAGGCTGCGCCAAGAGGCAAAGGAGCGAGAGAAGGAACGAATCCTTCAAGAACACGAGCAAATCAAGAAGAAAACTGTTCGGGAGCGGTTAGAGCAGATCAAGAAGACAGAGCTGGGCGCCAAAGCATTTAAAGATATTGACATTGAAGACCTTGAAGAACTGGATCCAGATTTTATTATGGCCAAACAGGTTGAACAACTGGAGAAAGAAAAGAAGGAACTTCAGGAACGCCTGAAGAATCAAGAAAAGAAGATTGACTATTTTGAGAGAGCTAAGCGTTTGGAAGAAATTCCTTTAATAAAGAGTGCTTATGAGGAACAAAGGGTTAAAGACATGGACCTGTGGGAACAGCAAGAAGAAGAAAGA
Peptide sequence:
MPSEQIRNQLTAMSSVLAKALEVIRPAHILQEKEEQHQLAVNAYLKNSRKEHQRILARRQTIEERKERLESLNIQREKEELEQREAELQKVRKAEEERLRQEAKEREKERILQEHEQIKKKTVRERLEQIKKTELGAKAFKDIDIEDLEELDPDFIMAKQVEQLEKEKKELQERLKNQEKKIDYFERAKRLEEIPLIKSAYEEQRVKDMDLWEQQEEERVAQIYQSIEFSRLTSLVPFVDAFQLERAIVDAARHCDLQVRIDHTSRTLSFGSDLNYATREDAPVGPHLQSMPSEQIRNQLTAMSSVLAKALEVIRPAHILQEKEEQHQLAVNAYLKNSRKEHQRILARRQTIEERKERLESLNIQREKEELEQREAELQKVRKAEEERLRQEAKEREKERILQEHEQIKKKTVRERLEQIKKTELGAKAFKDIDIEDLEELDPDFIMAKQVEQLEKEKKELQERLKNQEKKIDYFERAKRLEEIPLIKSAYEEQRVKDMDLWEQQEEER
IRESfinder result
IRESfinder score
0.540083555
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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