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mmu_circTjp2_724
Basic information of circular RNA
PanCircBase ID:
mmu_circTjp2_724
mm39_Chr. Position ID:
chr19|24091439|24102085|-
Gene name:
Tjp2
Transcript:
ENSMUST00000233027.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
12,11,10,9,8,7
Exon/intron offsets:
0,5869,6761,7949,8187,10492
Genomic length:
10646
Exon/intron sizes in nt:
109,151,67,134,109,154
Flanking exon/introns:
chr19:24090320-24091439|chr19:24102085-24103068
Splice length:
724
Other database IDs:
circAtlas: mmu-Tjp2_0014
Human Ortholog IDs:
Mature spliced Sequence:
ATCAACGGCACTGTTACTGAGAACATGTCTCTAACGGATGCTCGGAAGTTAATAGAAAAGTCTCGAGGAAAACTGCAGCTTGTGGTGTTGAGAGACAGCAAGCAGACCCTCATCAACATCCCAGCCCTAAACGACAGCGACTCTGAAGTGGAGGATATCTCGGAAATAGAGTCCAACCGGTCTTTCTCTCCAGAGGAGAGACGCCAGCAGTATTCTGATCAGGATTACCATTCCTCCACTGAGAAGCTGAAGGAGAGGCCGAGCTCAAGAGAGGAGACCTCAGGCAGACTATCCAGGATGGGTGCCACTCCCACGCCGTTCAAGTCCACGGGGGACATCACAGCTGCGGGGGTCACAGAGGCCAGCAGGGAGCCCAGGTACCAGGAAGAAGGCCCAGTTCCTCAACCCAGAACAGCTCCAAGAGTTTTTCTTCGTCCTAGTCCCGAAGATGAAGCAATATATGGCCCTAACACCAAAATGGTGAGGTTCAAGAAGGGAGACAGCGTGGGCCTCCGGTTGGCTGGTGGAAACGACGTTGGGATATTTGTGGCTGGCATTCAGGAGGGCACCTCCGCAGAGCAGGAGGGCCTGCAAGAAGGAGACCAGATTCTGAAGGTGAACACACAGGATTTCAGAGGGCTAGTCCGGGAAGATGCGGTCCTCTACCTGCTAGAAATCCCCAAAGGTGAAACTGTGACCATTTTGGCTCAGAGCCGAGCAGACG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGAAGATGCGGTCCTCTACC
59.61
TCTCAACACCACAAGCTGCA
60.11
170
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGGAAGATGCGGTCCTCTAC
59.61
TCTCAACACCACAAGCTGCA
60.11
171
PCR template sequence:
CAGGATTTCAGAGGGCTAGTCCGGGAAGATGCGGTCCTCTACCTGCTAGAAATCCCCAAAGGTGAAACTGTGACCATTTTGGCTCAGAGCCGAGCAGACGATCAACGGCACTGTTACTGAGAACATGTCTCTAACGGATGCTCGGAAGTTAATAGAAAAGTCTCGAGGAAAACTGCAGCTTGTGGTGTTGAGAGACAGCA
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-7b-5p(1), mmu-miR-429-3p(1), mmu-miR-200b-3p(1), mmu-miR-200c-3p(1), mmu-miR-7a-5p(1), mmu-miR-185-5p(1), mmu-miR-434-3p(1), mmu-miR-431-5p(1), mmu-miR-383-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGCCGAGCAGACGATCAACGGCACTG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTJP2_724_ORF_1
1.0172
0.339918719
0.960841843
720
ORF sequence:
ATGTCTCTAACGGATGCTCGGAAGTTAATAGAAAAGTCTCGAGGAAAACTGCAGCTTGTGGTGTTGAGAGACAGCAAGCAGACCCTCATCAACATCCCAGCCCTAAACGACAGCGACTCTGAAGTGGAGGATATCTCGGAAATAGAGTCCAACCGGTCTTTCTCTCCAGAGGAGAGACGCCAGCAGTATTCTGATCAGGATTACCATTCCTCCACTGAGAAGCTGAAGGAGAGGCCGAGCTCAAGAGAGGAGACCTCAGGCAGACTATCCAGGATGGGTGCCACTCCCACGCCGTTCAAGTCCACGGGGGACATCACAGCTGCGGGGGTCACAGAGGCCAGCAGGGAGCCCAGGTACCAGGAAGAAGGCCCAGTTCCTCAACCCAGAACAGCTCCAAGAGTTTTTCTTCGTCCTAGTCCCGAAGATGAAGCAATATATGGCCCTAACACCAAAATGGTGAGGTTCAAGAAGGGAGACAGCGTGGGCCTCCGGTTGGCTGGTGGAAACGACGTTGGGATATTTGTGGCTGGCATTCAGGAGGGCACCTCCGCAGAGCAGGAGGGCCTGCAAGAAGGAGACCAGATTCTGAAGGTGAACACACAGGATTTCAGAGGGCTAGTCCGGGAAGATGCGGTCCTCTACCTGCTAGAAATCCCCAAAGGTGAAACTGTGACCATTTTGGCTCAGAGCCGAGCAGACGATCAACGGCACTGTTACTGA
Peptide sequence:
MSLTDARKLIEKSRGKLQLVVLRDSKQTLINIPALNDSDSEVEDISEIESNRSFSPEERRQQYSDQDYHSSTEKLKERPSSREETSGRLSRMGATPTPFKSTGDITAAGVTEASREPRYQEEGPVPQPRTAPRVFLRPSPEDEAIYGPNTKMVRFKKGDSVGLRLAGGNDVGIFVAGIQEGTSAEQEGLQEGDQILKVNTQDFRGLVREDAVLYLLEIPKGETVTILAQSRADDQRHCY
IRESfinder result
IRESfinder score
0.36524091
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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