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mmu_circTjp1_418
Basic information of circular RNA
PanCircBase ID:
mmu_circTjp1_418
mm39_Chr. Position ID:
chr7|64992364|65163079|-
Gene name:
Tjp1
Transcript:
ENSMUST00000206228.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
5,4,3,2
Exon/intron offsets:
0,998,12215,170582
Genomic length:
170715
Exon/intron sizes in nt:
10,31,25,57,133
Flanking exon/introns:
None|chr7:65163079-65177311
Splice length:
418
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GGTAACTCCATCCTCTGAAAACCCCCATGGTGCTACTTCCACTGTCAGCCAAGGAAAACCTTCTCTACGACGAATTAAAGGGAGACTACATCGGAGCAAAAGCCTTGACAGTATCGACTTCTGTGAACTCACTAGCACAGCAATGGAGGAAACAGCTATATGGGAACAGCACACAGTGACGCTTCACAGGGCTCCTGGGTTTGGATTTGGAATTGCAATCTCTGGTGGAAGAGATAATCCTCATTTTCAGAGTGGGGAAACCTCCATAGTGATTTCTGATGTGTTAAAAGGAGGGCCAGCTGAAGGACAGCTACAGGAAAATGACCGAGTTGCAATGGTTAACGGAGTTTCAATGGATAACGTTGAACATGCTTTTGCTGTTCAGCAGCTAAGGAAGAGTGGGAAAAACGCAAAAATT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCGAGTTGCAATGGTTAACGG
60.14
CCTTGGCTGACAGTGGAAGT
59.89
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCGAGTTGCAATGGTTAACGG
60.14
GGCTGACAGTGGAAGTAGCA
59.68
144
PCR template sequence:
AAATGACCGAGTTGCAATGGTTAACGGAGTTTCAATGGATAACGTTGAACATGCTTTTGCTGTTCAGCAGCTAAGGAAGAGTGGGAAAAACGCAAAAATTGGTAACTCCATCCTCTGAAAACCCCCATGGTGCTACTTCCACTGTCAGCCAAGGAAAACCTTCTCTACGACGAATTAAAGGGAGACTACATCGGAGCAAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-204-5p(1), mmu-miR-136-5p(1), mmu-miR-383-5p(1), mmu-miR-3470b(1), mmu-miR-376a-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AAACGCAAAAATTGGTAACTCCATCC
siRNA sets
TGGAGTTACCAATTTTTGC,ATGGAGTTACCAATTTTTG,GGAGTTACCAATTTTTGCG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTJP1_418_ORF_1
1.0387
0.053854564
0.27106055
294
ORF sequence:
ATGGAGGAAACAGCTATATGGGAACAGCACACAGTGACGCTTCACAGGGCTCCTGGGTTTGGATTTGGAATTGCAATCTCTGGTGGAAGAGATAATCCTCATTTTCAGAGTGGGGAAACCTCCATAGTGATTTCTGATGTGTTAAAAGGAGGGCCAGCTGAAGGACAGCTACAGGAAAATGACCGAGTTGCAATGGTTAACGGAGTTTCAATGGATAACGTTGAACATGCTTTTGCTGTTCAGCAGCTAAGGAAGAGTGGGAAAAACGCAAAAATTGGTAACTCCATCCTCTGA
Peptide sequence:
MEETAIWEQHTVTLHRAPGFGFGIAISGGRDNPHFQSGETSIVISDVLKGGPAEGQLQENDRVAMVNGVSMDNVEHAFAVQQLRKSGKNAKIGNSIL
IRESfinder result
IRESfinder score
0.550450979
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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