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mmu_circKrit1_926
Basic information of circular RNA
PanCircBase ID:
mmu_circKrit1_926
mm39_Chr. Position ID:
chr5|3862331|3872243|+
Gene name:
Krit1
Transcript:
ENSMUST00000080085.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
6,7,8,9,10,11
Exon/intron offsets:
0,410,719,6195,6978,9755
Genomic length:
9912
Exon/intron sizes in nt:
2,44,11,61,44,15,71,08,000
Flanking exon/introns:
chr5:3861385-3862331|chr5:3872243-3873633
Splice length:
926
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGGTTAGATGAACGTCATGCGCAGTCTCACTTTATTCCAGCTTTATTCCGACCTTCTCCCCTTGAACGGATAAAGACAAATGTCATAAACCCTGCGTATGCTGCTGAATTAGGCCAGGTAGACAATTCACTACATATGGGCTATAGTGCACTAGAAATAAAGAGTAAAATGCTAGCCCTAGAGAAAGCAGACACCTGCATTTACAACCCTTTGTTTGGATCAGATCTTCAGTATACAAATCGGGTAGATAAAGTGGTAATAAATCCATACTTTGGTCTCGGAGCTCCAGACTACTCAAAAATCCAAATTCCCAAACAGGAAAAATGGCAGCGAAGCATGAGCAGCGTTGTGGAAGACAAAGAACGACAGTGGGTTGATGACTTTCCTTTACATCGAAATGCCTGTGAAGGAGATTCAGAATTACTGAGCCATCTTCTCGATAAAGGACTTTCAGTCAACCAACTAGATAATGACCACTGGGCACCCATTCATTATGCATGCTGGTATGGAAAAGTTGAGGCCACTCGCATATTATTAGAGAAAGGAAAGTGCAATCCAAACCTTTTAAATGGGCAGCTCAGCTCACCGCTTCACTTTGCTGCTGGAGGCGGCCATGCTGAAATAGTGCAGATCCTCCTGACTCACCCAGACATTGACAGGCACATAACAGATCAACAAGGAAGATCCCCATTAAATGTTTGTGAAGAAAACAAACAAAATAACTGGGAAGAAGCTGCAAAATTGTTGAAAGACGCCATTAACAAGCCATATGAAAAAGTTCGAATCTATAGAATGGATGGATCATACCGTTCTGTTGAACTAAAGCATGGCAATAATACCACAGCACAGCAGATAATGGAGGGAATGCGGCTCTCTCAGGAAACTCAGCGATATTTCACTATTTGGATCTGTTCAGAAAATCTTA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TAATGGAGGGAATGCGGCTC
59.89
GTTCAAGGGGAGAAGGTCGG
60.04
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TAATGGAGGGAATGCGGCTC
59.89
CCGTTCAAGGGGAGAAGGTC
60.04
142
PCR template sequence:
CATGGCAATAATACCACAGCACAGCAGATAATGGAGGGAATGCGGCTCTCTCAGGAAACTCAGCGATATTTCACTATTTGGATCTGTTCAGAAAATCTTAGTGGTTAGATGAACGTCATGCGCAGTCTCACTTTATTCCAGCTTTATTCCGACCTTCTCCCCTTGAACGGATAAAGACAAATGTCATAAACCCTGCGTAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
16
Interacting miRNAs (#binding sites)
mmu-miR-15a-5p(1), mmu-miR-32-5p(1), mmu-miR-103-3p(1), mmu-miR-135a-5p(1), mmu-miR-92a-3p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-320-3p(1), mmu-miR-25-3p(1), mmu-miR-136-5p(1), mmu-miR-22-3p(1), mmu-miR-107-3p(1), mmu-miR-5101(1), mmu-miR-335-3p(1), mmu-miR-296-3p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TCAGAAAATCTTAGTGGTTAGATGAA
siRNA sets
AACCACTAAGATTTTCTGA, TAACCACTAAGATTTTCTG, CTAACCACTAAGATTTTCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCKRIT1_926_ORF_1
0.916
0.072368511
0.922123066
798
ORF sequence:
ATGGGCTATAGTGCACTAGAAATAAAGAGTAAAATGCTAGCCCTAGAGAAAGCAGACACCTGCATTTACAACCCTTTGTTTGGATCAGATCTTCAGTATACAAATCGGGTAGATAAAGTGGTAATAAATCCATACTTTGGTCTCGGAGCTCCAGACTACTCAAAAATCCAAATTCCCAAACAGGAAAAATGGCAGCGAAGCATGAGCAGCGTTGTGGAAGACAAAGAACGACAGTGGGTTGATGACTTTCCTTTACATCGAAATGCCTGTGAAGGAGATTCAGAATTACTGAGCCATCTTCTCGATAAAGGACTTTCAGTCAACCAACTAGATAATGACCACTGGGCACCCATTCATTATGCATGCTGGTATGGAAAAGTTGAGGCCACTCGCATATTATTAGAGAAAGGAAAGTGCAATCCAAACCTTTTAAATGGGCAGCTCAGCTCACCGCTTCACTTTGCTGCTGGAGGCGGCCATGCTGAAATAGTGCAGATCCTCCTGACTCACCCAGACATTGACAGGCACATAACAGATCAACAAGGAAGATCCCCATTAAATGTTTGTGAAGAAAACAAACAAAATAACTGGGAAGAAGCTGCAAAATTGTTGAAAGACGCCATTAACAAGCCATATGAAAAAGTTCGAATCTATAGAATGGATGGATCATACCGTTCTGTTGAACTAAAGCATGGCAATAATACCACAGCACAGCAGATAATGGAGGGAATGCGGCTCTCTCAGGAAACTCAGCGATATTTCACTATTTGGATCTGTTCAGAAAATCTTAGTGGTTAG
Peptide sequence:
MGYSALEIKSKMLALEKADTCIYNPLFGSDLQYTNRVDKVVINPYFGLGAPDYSKIQIPKQEKWQRSMSSVVEDKERQWVDDFPLHRNACEGDSELLSHLLDKGLSVNQLDNDHWAPIHYACWYGKVEATRILLEKGKCNPNLLNGQLSSPLHFAAGGGHAEIVQILLTHPDIDRHITDQQGRSPLNVCEENKQNNWEEAAKLLKDAINKPYEKVRIYRMDGSYRSVELKHGNNTTAQQIMEGMRLSQETQRYFTIWICSENLSG
IRESfinder result
IRESfinder score
0.581262851
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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