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mmu_circSec31a_724
Basic information of circular RNA
PanCircBase ID:
mmu_circSec31a_724
mm39_Chr. Position ID:
chr5|100538617|100543760|-
Gene name:
Sec31a
Transcript:
ENSMUST00000094578.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
12,11,10,9,8
Exon/intron offsets:
0,1636,2104,2444,5043
Genomic length:
5143
Exon/intron sizes in nt:
7,52,34,15,31,62,100
Flanking exon/introns:
chr5:100536965-100538617|chr5:100543760-100547205
Splice length:
724
Other database IDs:
CIRCpedia: HSA_CIRCpedia_103247
Human Ortholog IDs:
Mature spliced Sequence:
GGGGATTTTGGCAGTTGCTTGGAGCATGGCAGATCCTGAGTTGTTGTTAAGCTGTGGAAAAGATGCTAAGATTCTCTGCTCTAACCCTAACACAGGAGAGGTATTATATGAACTTCCCACCAACACACAGTGGTGCTTTGATATCCAGTGGTGTCCTCGAAATCCTGCTGTCCTGTCCGCTGCTTCCTTTGATGGACGGATCAGTGTCTATTCCATCATGGGAGGGAGCATAGACGGCTTACGGCAGAAACAAGTTGACAAGCTTTCATCATCTTTTGGGAATCTTGATCCTTTCGGCACAGGACAGCCTCTCCCTCCATTACAAATCCCACAGCAGAGCGCTCAGCACAGCATAGTGCTGCCCCTGAAGAAGCCTCCCAAGTGGATCCGGAGGCCTGTGGGCGCTTCCTTCTCGTTTGGAGGGAAGTTGGTGACTTTTGAGAGCGTTGCAGTGCCGCTGCAGCAGGGAGCTGAGCAGCAGCGACGGCAGCCTGTGTTCATCAGTCAGGTGGTGACGGAGAAGGACTTTCTCAACCGGTCGGCGCAGCTGCAGCATGCTGTGCAGTCTCAGGGCTTCATCGGTTACTGCCAGAAAAAGATCGAGGCTTCCCAGACCGAGTTTGAGAAAAATGTGTGGTCCTTCTTGAAGGTAAACTTTGAGGAGGATTCTCGTGGAAAATACCTTGAGCTTCTGGGATACAGAAAGGAAGATCTGGGGCAGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGTGGTCCTTCTTGAAGGT
59.16
ACAACAACTCAGGATCTGCCA
59.58
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATGTGTGGTCCTTCTTGAAGGT
59.56
ACAACAACTCAGGATCTGCCA
59.58
142
PCR template sequence:
GAAAAATGTGTGGTCCTTCTTGAAGGTAAACTTTGAGGAGGATTCTCGTGGAAAATACCTTGAGCTTCTGGGATACAGAAAGGAAGATCTGGGGCAGAAGGGGGATTTTGGCAGTTGCTTGGAGCATGGCAGATCCTGAGTTGTTGTTAAGCTGTGGAAAAGATGCTAAGATTCTCTGCTCTAACCCTAACACAGGAGAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-103-3p(1), mmu-miR-125b-5p(1), mmu-miR-503-5p(1), mmu-miR-127-3p(1), mmu-miR-125a-5p(1), mmu-miR-370-3p(1), mmu-miR-107-3p(1), mmu-miR-224-5p(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TCTGGGGCAGAAGGGGGATTTTGGCA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSEC31A_724_ORF_1
0.8939
0.241000132
0.936811531
738
ORF sequence:
ATGGCAGATCCTGAGTTGTTGTTAAGCTGTGGAAAAGATGCTAAGATTCTCTGCTCTAACCCTAACACAGGAGAGGTATTATATGAACTTCCCACCAACACACAGTGGTGCTTTGATATCCAGTGGTGTCCTCGAAATCCTGCTGTCCTGTCCGCTGCTTCCTTTGATGGACGGATCAGTGTCTATTCCATCATGGGAGGGAGCATAGACGGCTTACGGCAGAAACAAGTTGACAAGCTTTCATCATCTTTTGGGAATCTTGATCCTTTCGGCACAGGACAGCCTCTCCCTCCATTACAAATCCCACAGCAGAGCGCTCAGCACAGCATAGTGCTGCCCCTGAAGAAGCCTCCCAAGTGGATCCGGAGGCCTGTGGGCGCTTCCTTCTCGTTTGGAGGGAAGTTGGTGACTTTTGAGAGCGTTGCAGTGCCGCTGCAGCAGGGAGCTGAGCAGCAGCGACGGCAGCCTGTGTTCATCAGTCAGGTGGTGACGGAGAAGGACTTTCTCAACCGGTCGGCGCAGCTGCAGCATGCTGTGCAGTCTCAGGGCTTCATCGGTTACTGCCAGAAAAAGATCGAGGCTTCCCAGACCGAGTTTGAGAAAAATGTGTGGTCCTTCTTGAAGGTAAACTTTGAGGAGGATTCTCGTGGAAAATACCTTGAGCTTCTGGGATACAGAAAGGAAGATCTGGGGCAGAAGGGGGATTTTGGCAGTTGCTTGGAGCATGGCAGATCCTGA
Peptide sequence:
MADPELLLSCGKDAKILCSNPNTGEVLYELPTNTQWCFDIQWCPRNPAVLSAASFDGRISVYSIMGGSIDGLRQKQVDKLSSSFGNLDPFGTGQPLPPLQIPQQSAQHSIVLPLKKPPKWIRRPVGASFSFGGKLVTFESVAVPLQQGAEQQRRQPVFISQVVTEKDFLNRSAQLQHAVQSQGFIGYCQKKIEASQTEFEKNVWSFLKVNFEEDSRGKYLELLGYRKEDLGQKGDFGSCLEHGRS
IRESfinder result
IRESfinder score
0.561654801
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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