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mmu_circKrit1_2277
Basic information of circular RNA
PanCircBase ID:
mmu_circKrit1_2277
mm39_Chr. Position ID:
chr5|3863050|3880772|+
Gene name:
Krit1
Transcript:
ENSMUST00000199845.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
8,9,10,11,12
Exon/intron offsets:
0,5476,6259,9036,17553
Genomic length:
17722
Exon/intron sizes in nt:
1,44,15,71,08,16,99,160
Flanking exon/introns:
chr5:3862857-3863050|chr5:3880772-3881495
Splice length:
2277
Other database IDs:
circBase: mmu_circ_0001312, CIRCpedia: MMU_CIRCpedia_222302, circAtlas: mmu-Krit1_0017
Human Ortholog IDs:
Mature spliced Sequence:
AGAACGACAGTGGGTTGATGACTTTCCTTTACATCGAAATGCCTGTGAAGGAGATTCAGAATTACTGAGCCATCTTCTCGATAAAGGACTTTCAGTCAACCAACTAGATAATGACCACTGGGCACCCATTCATTATGCATGCTGGTATGGAAAAGTTGAGGCCACTCGCATATTATTAGAGAAAGGAAAGTGCAATCCAAACCTTTTAAATGGGCAGCTCAGCTCACCGCTTCACTTTGCTGCTGGAGGCGGCCATGCTGAAATAGTGCAGATCCTCCTGACTCACCCAGACATTGACAGGCACATAACAGATCAACAAGGAAGATCCCCATTAAATGTTTGTGAAGAAAACAAACAAAATAACTGGGAAGAAGCTGCAAAATTGTTGAAAGACGCCATTAACAAGCCATATGAAAAAGTTCGAATCTATAGAATGGATGGATCATACCGTTCTGTTGAACTAAAGCATGGCAATAATACCACAGCACAGCAGATAATGGAGGGAATGCGGCTCTCTCAGGAAACTCAGCGATATTTCACTATTTGGATCTGTTCAGAAAATCTTAGTAAGAAAACTTGAGAGGGGGAAGTAGTTTACTATTTAAATCTCATTGCTCCTTTTTGGATGTGTATTAAGAAACTTGTGGATAGCAGTAATTATTATTGACTTTTAGCTATATTTCATATTATTAGTGTTCAAACTGAAATGCTTCATTCAAAGCATGCTGAAATTAGTAAACACCAGAGGTTTTCTCTCTGACAATACAGTTAGTTTGAATGCTATTAAATGTAAAATTCATACATCTTGCCTTTATTTTCAGTGTTTCTCTCAAAGTGAGATATTTATGTTAGTTTTCTGTTGAACTTCTTATTTAAAATCAACTTAATATCAATGTATATTTATCCTTCCAAGTTTACTGTAAGTACTTGCAAAATATAATTAATTGTATGGTAATTATCTTTGAATATATGTTTAGCACCAAATAATCGTAATTATTTATAATTAAGTAAGCCACAATGGAATCAAGGATTTAGTGTACATTAATGCATTTGATTTGTGTTAAGAATTATCTGCAAAATTTTCTACAATTTTTTTCTAGTCCTATTTATGAAACCAGGTCTTTGCAAATACTACCAGATTCTATACTATTGATCACATCCTAAGCCCAAGAAATATTCTTTACTTTTTAAAAATTATTTTATTATTGTATGTGTATTTTCCCTGCATATATGTCTGTGCACCATGGGCATGCCTGGTTCCTGCAGAGGTTGGAGAGGTGTTGGATCCCTTGGACTAGAGTTGTAGATGGTTTTGAGCCACCATGTGTATGCTTAAAATTAAACCTAAGTTCTTTGGAAGAACATCCAATGCTCTTAACCACAGAACCATCTCTCCAGCCCATAGTCTACTTTTGTTTTATTTTTTTGAGACAGGATTTCACATGACTCAGGCTGGCCTCATACTTGCTATTTGGCTGAGGATAAACTTGAACTTGTGGTGGTGTTCTTAATATTCACCTCCAAGTACTGGGATTATAGTCTTGTGCCCTCATACGTAGCTCCCAAGAAATGCTCGTATAATTATGTCATTAAAAACAGGGACGTACCGGGCGTGGTGGTACACACCTTTAATCCTAGCACTCGGGAGGCAGGCAGATTTCTGAGTTCGAGGCCAGCCTGGTGTACAGAGTGAGTTCCAGGACAGCCAGGGCTATACAGAAAAACCTTGTCTCAAAAAACCAAAACCAAAACCAAAAAAAAAACAAAAACAAAAAACAAACAAAAAAACAGGGACGTATCCACAATTTGGGTAGTAATAATTGTTGAACTTTGATTTAAATTTAGATCTATAAACTGTTTGATACTTAGATGCATATAGTTTAATGTAAGGTTTCTATGCATTGATATAGTGGATTTATTTTACAGTATTATTCATAAAGAACAGCTCTTTTTCAGGTCTTCAGTTCAAGCCTTATCATAAACCCTTGCAACAAGTTCATGACTGGCCAGAAATACTTGCTGAATTGACTAATTTGGATCCACAAAGAGAAACACCACAGCTTTTCCTAAGAAGAGATGTGGGACTTCCTTTAGAAGTTGAGAAAAAGAGATTGAAGACCCACTAGCTATTCTTATTCTCTTTGATGAAGCCAGATATAATTTACTGAAGGGCTTTTATACAGCTCCTGATGCTAAACTGATAACACTGGCAAGTCTACTGTTACAAATAGTTTATGGGAATTATGAGAGTAAAAAGCACAAACAAGGTTTCTTAAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACAGCTCCTGATGCTAAACTGA
59.43
TCTCCTTCACAGGCATTTCGA
59.38
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACAGCTCCTGATGCTAAACTG
58.02
TCTCCTTCACAGGCATTTCGA
59.38
152
PCR template sequence:
ATACAGCTCCTGATGCTAAACTGATAACACTGGCAAGTCTACTGTTACAAATAGTTTATGGGAATTATGAGAGTAAAAAGCACAAACAAGGTTTCTTAAAAGAACGACAGTGGGTTGATGACTTTCCTTTACATCGAAATGCCTGTGAAGGAGATTCAGAATTACTGAGCCATCTTCTCGATAAAGGACTTTCAGTCAAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
20
Interacting miRNAs (#binding sites)
mmu-miR-5101(3), mmu-miR-29b-2-5p(2), mmu-miR-141-3p(1), mmu-miR-32-5p(1), mmu-miR-199a-5p(1), mmu-miR-429-3p(1), mmu-miR-135a-5p(1), mmu-miR-31-5p(1), mmu-miR-200c-3p(1), mmu-miR-92a-3p(1), mmu-miR-25-3p(1), mmu-miR-136-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-22-3p(1), mmu-miR-194-5p(1), mmu-miR-362-5p(1), mmu-miR-27a-5p(1), mmu-miR-335-3p(1), mmu-miR-3470b(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AAGGTTTCTTAAAAGAACGACAGTGG
siRNA sets
GTCGTTCTTTTAAGAAACC, TCGTTCTTTTAAGAAACCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.859924446
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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