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mmu_circRelch_1440
Basic information of circular RNA
PanCircBase ID:
mmu_circRelch_1440
mm39_Chr. Position ID:
chr1|105646499|105671074|+
Gene name:
Relch
Transcript:
ENSMUST00000186807.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
13
Exon/intron indexes:
13,14,15,16,17,18,19,20,21,22,23,24,25
Exon/intron offsets:
0,677,2493,6874,7568,9165,12426,15743,17148,21660,22238,22522,24436
Genomic length:
24575
Exon/intron sizes in nt:
1,41,16,51,48,15,71,24,00,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr1:105644574-105646499|chr1:105671074-105673793
Splice length:
1440
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
AAAGAAATCCGTAGTTCCCTGGTTCTTTCAATGTTGCAACAGATGTTAATGGAAGATAAGGCTGATTTGGTAAGAGAAGCTGTGATTAAAAGCCTGGGTATCATTATGGGCTACATTGATGATCCTGACAAATATCAACAGGGCTTTGAATTGTTGCTCTCTGCCCTGGGTGATCCCTCAGAAAGAGTTGTTAGTGCAACACACCAAGTATTTTTACCAGCCTATGCTGCCTGGACAACTGAACTTGGAAACTTACAGTCTCATCTTATACCTACACTACTGAACAAGATTGAAAAGCTTCTCAGGGAAGGAGAGCACGGGCTGGACGAACACAAGCTCCACATGTATCTTTCTGCCTTGCAGTCCTTGATCCCATCTCTCTTTGCATTAGTGCTACAGAACGCACCTTTCTCCAGCAAAGCCAAGCTGCATGGTGAAGTACCACATATTGAAGTGACTAGGTTCCCTCGGCCTATGTCACCTCTGCAAGATGTGTCTACTATTATTGGAAGTCGTGAGCAATTGGCAGTGCTACTACAACTTTATGATTACCAACTGGAACATGAAGGCACAACAGGCTGGGAGAGTTTACTCTGGGTTGTCAATCAATTGTTGCCACAGCTTATAGAAATAGTGGGCAAAATTAATGTAACCTCAACTGCCTGTGTCCATGAATTCTCCAGATTTTTCTGGCGTCTTTGCCGGACATTTGGCAAAATTTTTACAAACACTAAGGTAAAACCCCAGTTCCAAGAGATTTTAAGACTCTCTGAAGAAAATATTGATTCCTCAGCAGGAAATGGGGTCCTCACTAAAGCTACTGTCCCCATTTATGCAACAGGAGTCCTCACGTGTTACATTCAGGAAGAGGACCGAAAGCTGTTAGTTGGCTTCTTGGAAGATGTGATGACACTGCTTTCACTGTCTCATGCTCCTCTTGACAGCCTGAAGGCTTCTTTTGTGGAACTTGGTGCAAACCCGGCCTATCATGAGCTGCTGCTAACTGTTCTGTGGTATGGTGTTGTTCATACTTCTGCACTTGTCAGGTGTACTGCTGCTAGGATGTTTGAGCTGTTGGTGAAGGGGGTGAATGAGACTCTGGTAGCTCAGAGGGTTGTTCCTGCTCTCATTACTCTCTCCAGTGACCCTGAAATCTGACTCTTCGAGGCATGAGTGAAGCATTAGTTGACAAGCGGGTTGCTCCGGCCCTTGTTACCTTGTCCGGTGATCCTGAATTCTCTGTCAGGATTGCTACAATCCCAGCATTTGGCACTATTATGGAAACAGTTATTCAGAGAGAGTTGCTAGAAAGAGTGAAGATGCAGTTGGCTTCTTTCCTGGAAGACCCTCAGTACCAAGACCAGCATTCTTTGCATACAGAGGTCATCCGAACATTTGGCAGAGTCGGGCCTAATGCAGAACCCCGGTTCCGAGATGAGT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGAACATTTGGCAGAGTCGG
59.56
ACCCAGGCTTTTAATCACAGC
58.83
151
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCGAACATTTGGCAGAGTCG
59.56
ACCCAGGCTTTTAATCACAGC
58.83
152
PCR template sequence:
GAAGACCCTCAGTACCAAGACCAGCATTCTTTGCATACAGAGGTCATCCGAACATTTGGCAGAGTCGGGCCTAATGCAGAACCCCGGTTCCGAGATGAGTAAAGAAATCCGTAGTTCCCTGGTTCTTTCAATGTTGCAACAGATGTTAATGGAAGATAAGGCTGATTTGGTAAGAGAAGCTGTGATTAAAAGCCTGGGTA
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-322-5p(3), mmu-miR-16-5p(2), mmu-miR-15a-5p(1), mmu-miR-375-3p(1), mmu-miR-103-3p(1), mmu-miR-15b-5p(1), mmu-miR-18a-5p(1), mmu-miR-125b-5p(1), mmu-miR-433-3p(1), mmu-miR-351-5p(1), mmu-miR-125a-5p(1), mmu-miR-411-3p(1), mmu-miR-370-3p(1), mmu-miR-324-3p(1), mmu-miR-107-3p(1), mmu-miR-697(1)
siRNAs for circular RNA silencing
Junction sequence
TTCCGAGATGAGTAAAGAAATCCGTA
siRNA sets
ATTTCTTTACTCATCTCGG,GATTTCTTTACTCATCTCG,TTTCTTTACTCATCTCGGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRELCH_1440_ORF_1
0.9788
0.050635349
0.994873462
1185
ORF sequence:
ATGCAGAACCCCGGTTCCGAGATGAGTAAAGAAATCCGTAGTTCCCTGGTTCTTTCAATGTTGCAACAGATGTTAATGGAAGATAAGGCTGATTTGGTAAGAGAAGCTGTGATTAAAAGCCTGGGTATCATTATGGGCTACATTGATGATCCTGACAAATATCAACAGGGCTTTGAATTGTTGCTCTCTGCCCTGGGTGATCCCTCAGAAAGAGTTGTTAGTGCAACACACCAAGTATTTTTACCAGCCTATGCTGCCTGGACAACTGAACTTGGAAACTTACAGTCTCATCTTATACCTACACTACTGAACAAGATTGAAAAGCTTCTCAGGGAAGGAGAGCACGGGCTGGACGAACACAAGCTCCACATGTATCTTTCTGCCTTGCAGTCCTTGATCCCATCTCTCTTTGCATTAGTGCTACAGAACGCACCTTTCTCCAGCAAAGCCAAGCTGCATGGTGAAGTACCACATATTGAAGTGACTAGGTTCCCTCGGCCTATGTCACCTCTGCAAGATGTGTCTACTATTATTGGAAGTCGTGAGCAATTGGCAGTGCTACTACAACTTTATGATTACCAACTGGAACATGAAGGCACAACAGGCTGGGAGAGTTTACTCTGGGTTGTCAATCAATTGTTGCCACAGCTTATAGAAATAGTGGGCAAAATTAATGTAACCTCAACTGCCTGTGTCCATGAATTCTCCAGATTTTTCTGGCGTCTTTGCCGGACATTTGGCAAAATTTTTACAAACACTAAGGTAAAACCCCAGTTCCAAGAGATTTTAAGACTCTCTGAAGAAAATATTGATTCCTCAGCAGGAAATGGGGTCCTCACTAAAGCTACTGTCCCCATTTATGCAACAGGAGTCCTCACGTGTTACATTCAGGAAGAGGACCGAAAGCTGTTAGTTGGCTTCTTGGAAGATGTGATGACACTGCTTTCACTGTCTCATGCTCCTCTTGACAGCCTGAAGGCTTCTTTTGTGGAACTTGGTGCAAACCCGGCCTATCATGAGCTGCTGCTAACTGTTCTGTGGTATGGTGTTGTTCATACTTCTGCACTTGTCAGGTGTACTGCTGCTAGGATGTTTGAGCTGTTGGTGAAGGGGGTGAATGAGACTCTGGTAGCTCAGAGGGTTGTTCCTGCTCTCATTACTCTCTCCAGTGACCCTGAAATCTGA
Peptide sequence:
MQNPGSEMSKEIRSSLVLSMLQQMLMEDKADLVREAVIKSLGIIMGYIDDPDKYQQGFELLLSALGDPSERVVSATHQVFLPAYAAWTTELGNLQSHLIPTLLNKIEKLLREGEHGLDEHKLHMYLSALQSLIPSLFALVLQNAPFSSKAKLHGEVPHIEVTRFPRPMSPLQDVSTIIGSREQLAVLLQLYDYQLEHEGTTGWESLLWVVNQLLPQLIEIVGKINVTSTACVHEFSRFFWRLCRTFGKIFTNTKVKPQFQEILRLSEENIDSSAGNGVLTKATVPIYATGVLTCYIQEEDRKLLVGFLEDVMTLLSLSHAPLDSLKASFVELGANPAYHELLLTVLWYGVVHTSALVRCTAARMFELLVKGVNETLVAQRVVPALITLSSDPEI
IRESfinder result
IRESfinder score
0.72743314
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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