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mmu_ciKrit1_720
Basic information of circular RNA
PanCircBase ID:
mmu_ciKrit1_720
mm39_Chr. Position ID:
chr5|3880772|3881492|+
Gene name:
Krit1
Transcript:
ENSMUST00000199845.5
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
12
Exon/intron offsets:
0
Genomic length:
720
Exon/intron sizes in nt:
720
Flanking exon/introns:
chr5:3880772-3881495
Splice length:
720
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGTATTTAATACAATGCATGGTTTTTCAAATGCTCAAGATTCTCTTTAACCAACACAGTTTTAATATTACTGCAAAGTGTTTATGCATTGTTAGCCAGGTACGGTGGCACCTGCTCATAATCAATGAGACTAAGACCGGACAAAGGACCGTAAGTCAGACCAGCCTGGGCTGCATAGGAAGACCTTGTCTCAGACAGACAGGCTGTTTATACATTGGTTTAGTATTAAATAATACAAAACATTAAGTAAAAGAAAAAAAAAACTATTCTAAAGCATTTATTGGTTTTTGGTTCATAAAACATTTCAAAGTTTTACTTATATATATTGTACTTGATATAATTTCCCCTTATGGTTTTTCTTTGTTTATTTTGTGTTTAATTAAGTTTACTAAAACTTTTTCTTAATAAAAGAAAAATTATGAGTCAGATATTTAAGAATCCCACCATATAAAGTTGTTTGATATTTAATCCTTGAGAGAAAATAGAGGTTTTAGCATGTCTAAAGTTTTTTTAATGTGATCTTTCAACTTTTGAAAATATTTTCTGGTTATTGAAGAAGGAAACATTAAACTGATAATATTAAGATTTTGGAACATTTTGTTTTAAAACATCATATTCGGCTTAAAATTTCCATTATTTGGTACCATTTGTGACAGAAGGATTATTGTACTTTAGCTACTAAAAATGACTTATTTAAGGATATTGGCATGTGTACTTC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGTACCATTTGTGACAGAAGGA
59.61
GGCTAACAATGCATAAACACTTTGC
60.16
179
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGTACCATTTGTGACAGAAGGA
59.61
TGGCTAACAATGCATAAACACT
56.6
180
PCR template sequence:
GGCTTAAAATTTCCATTATTTGGTACCATTTGTGACAGAAGGATTATTGTACTTTAGCTACTAAAAATGACTTATTTAAGGATATTGGCATGTGTACTTCGTAAGTATTTAATACAATGCATGGTTTTTCAAATGCTCAAGATTCTCTTTAACCAACACAGTTTTAATATTACTGCAAAGTGTTTATGCATTGTTAGCCA
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-23b-3p(1), mmu-miR-199a-5p(1), mmu-miR-33-5p(1), mmu-miR-203-3p(1), mmu-miR-23a-3p(1), mmu-miR-301a-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GCATGTGTACTTCGTAAGTATTTAAT
siRNA sets
TAAATACTTACGAAGTACA, AAATACTTACGAAGTACAC, TTAAATACTTACGAAGTAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIKRIT1_720_ORF_1
0.9374
-0.3434791
0.052012846
282
ORF sequence:
ATGACTTATTTAAGGATATTGGCATGTGTACTTCGTAAGTATTTAATACAATGCATGGTTTTTCAAATGCTCAAGATTCTCTTTAACCAACACAGTTTTAATATTACTGCAAAGTGTTTATGCATTGTTAGCCAGGTACGGTGGCACCTGCTCATAATCAATGAGACTAAGACCGGACAAAGGACCGTAAGTCAGACCAGCCTGGGCTGCATAGGAAGACCTTGTCTCAGACAGACAGGCTGTTTATACATTGGTTTAGTATTAAATAATACAAAACATTAA
Peptide sequence:
MTYLRILACVLRKYLIQCMVFQMLKILFNQHSFNITAKCLCIVSQVRWHLLIINETKTGQRTVSQTSLGCIGRPCLRQTGCLYIGLVLNNTKH
IRESfinder result
IRESfinder score
0.942492881
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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