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mmu_circKrit1_614
Basic information of circular RNA
PanCircBase ID:
mmu_circKrit1_614
mm39_Chr. Position ID:
chr5|3873633|3882226|+
Gene name:
Krit1
Transcript:
ENSMUST00000080085.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
12,13,14,15
Exon/intron offsets:
0,6972,7862,8386
Genomic length:
8593
Exon/intron sizes in nt:
152,167,88,207
Flanking exon/introns:
chr5:3872243-3873633|chr5:3882226-3886777
Splice length:
614
Other database IDs:
CIRCpedia: MMU_CIRCpedia_18852, circAtlas: mmu-Krit1_0013
Human Ortholog IDs:
Mature spliced Sequence:
GTCTTCAGTTCAAGCCTTATCATAAACCCTTGCAACAAGTTCATGACTGGCCAGAAATACTTGCTGAATTGACTAATTTGGATCCACAAAGAGAAACACCACAGCTTTTCCTAAGAAGAGATGTGGGACTTCCTTTAGAAGTTGAGAAAAAGATTGAAGACCCACTAGCTATTCTTATTCTCTTTGATGAAGCCAGATATAATTTACTGAAGGGCTTTTATACAGCTCCTGATGCTAAACTGATAACACTGGCAAGTCTACTGTTACAAATAGTTTATGGGAATTATGAGAGTAAAAAGCACAAACAAGGTTTCTTAAATGAAGAAACTCTGAAATCCATCGTACCTATTACTAAACTGAAAAGTAAGGCGCCTCACTGGATAAACCGAATACTCCATGAGTACAAGAATCTGAGTCTGAGTGAGGGCGTCAGTAAGGAAATGCACCACCTGCAGCGCATGTTCCTACAGAACTGCTGGGAGATCCCTACGTACGGAGCCGCCTTCTTCACAGGACAGATATTTACAAAGGCAAGCCCAAGCAATCATAAAGTCATCCCTGTGTATGTAGGAGTGAATATAAAAGGACTTCATCTCCTGAACATGGAAACTAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAAAGGCAAGCCCAAGCAAT
59.96
GGCCAGTCATGAACTTGTTGC
60.34
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAAAGGCAAGCCCAAGCAAT
59.96
GCCAGTCATGAACTTGTTGCA
59.66
140
PCR template sequence:
ACAGATATTTACAAAGGCAAGCCCAAGCAATCATAAAGTCATCCCTGTGTATGTAGGAGTGAATATAAAAGGACTTCATCTCCTGAACATGGAAACTAAGGTCTTCAGTTCAAGCCTTATCATAAACCCTTGCAACAAGTTCATGACTGGCCAGAAATACTTGCTGAATTGACTAATTTGGATCCACAAAGAGAAACACC
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-199a-5p(1), mmu-miR-143-3p(1), mmu-miR-194-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-5101(1), mmu-miR-466b-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CATGGAAACTAAGGTCTTCAGTTCAA
siRNA sets
CTGAAGACCTTAGTTTCCA, GAAGACCTTAGTTTCCATG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCKRIT1_614_ORF_1
1.0808
0.113954625
0.264876112
246
ORF sequence:
ATGCACCACCTGCAGCGCATGTTCCTACAGAACTGCTGGGAGATCCCTACGTACGGAGCCGCCTTCTTCACAGGACAGATATTTACAAAGGCAAGCCCAAGCAATCATAAAGTCATCCCTGTGTATGTAGGAGTGAATATAAAAGGACTTCATCTCCTGAACATGGAAACTAAGGTCTTCAGTTCAAGCCTTATCATAAACCCTTGCAACAAGTTCATGACTGGCCAGAAATACTTGCTGAATTGA
Peptide sequence:
MHHLQRMFLQNCWEIPTYGAAFFTGQIFTKASPSNHKVIPVYVGVNIKGLHLLNMETKVFSSSLIINPCNKFMTGQKYLLN
IRESfinder result
IRESfinder score
0.677979932
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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