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mmu_circGsap_913
Basic information of circular RNA
PanCircBase ID:
mmu_circGsap_913
mm39_Chr. Position ID:
chr5|21434158|21475028|+
Gene name:
Gsap
Transcript:
ENSMUST00000198014.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
13,14,15,16,17,18,19,20,21
Exon/intron offsets:
0,13644,17738,21580,21778,24209,24798,28709,40741
Genomic length:
40870
Exon/intron sizes in nt:
86,78,10,29,32,18,70,80,00,000
Flanking exon/introns:
chr5:21433065-21434158|chr5:21475028-21475553
Splice length:
913
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
ACTTGTCAACTTTGGATATGACTATCGTCAAGACCGTGAGAAGCTGTGCAATCAGCCTTCTCTCTGCATTTTTACCAACCATACAGGGAGTTTGTGTATGTGTTACAGCCCTAAGTCTGACTCACGGGAAGAAATCACATATTCAGTGTTCTACCTCCATAAAGGATACAGAAAGATCTTCACTGCAGCTCCTGGAAGTGCTGACTCACAGGTCACAAACGGTGCTGACTCACAGGTCACAGACGGCATCGCTTTCCTCAACCTTGGCTACTTTGTGGCTGTTTACTCCCCTGGCCATTTCCTTCATTTACTTAACATTCAGCATCCAGACTTGGTCTGCCACAGTCTGTTTCTGACAGGAAACAACAAAATAGCTGCTGTGCTACCTCCAAGTCCTTTGCAGTCCCTGCCGGGGTCCCTGGTTCTGGACTGCTATTCTGGAAAGGTCTATAGAGTAACCCTTGACCAGTCATACTTGTTGCGGTTCCTATGGAACGCCCATCTCGACTGTGAGAGAATGGCTGCACTGCACTGTATACTATCCTGTAGTCAAGACCCAGGTTTCCCGGAAGAACAGATTATCCAGTGGATTTCGGAGCATGTCTCTGCTTGCCATTCATTTGACCTCATTCAAGAATTTCTAATTGCTTCCTCCTATTGGAGTGTGTATGCAGAGCTGGACGACATGGGCATGCTCCTACAATACTCCTCTGTGCTGACTTGGAACACAGAAATTCCCGGAATAAAGTTTACGACAGAGGAACTCCCATTGCCTCTTATGAAGGTCTACGGCTTGAAGGGGTACTGGGCAAAGCTGAACTCCAACCTTGAGTACATTAAGTATACAAAACCTCACTTGCACTATCACAACAGCGTCGTGAGGAGGGAATGGCATAACCTGATCTCTGAAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTGAACTCCAACCTTGAGT
57.74
AGCTTCTCACGGTCTTGACG
60.04
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCTGAACTCCAACCTTGAGT
57.74
GCTTCTCACGGTCTTGACGA
60.04
144
PCR template sequence:
GCTGAACTCCAACCTTGAGTACATTAAGTATACAAAACCTCACTTGCACTATCACAACAGCGTCGTGAGGAGGGAATGGCATAACCTGATCTCTGAAGAGACTTGTCAACTTTGGATATGACTATCGTCAAGACCGTGAGAAGCTGTGCAATCAGCCTTCTCTCTGCATTTTTACCAACCATACAGGGAGTTTGTGTATG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
19
Interacting miRNAs (#binding sites)
mmu-let-7a-5p(2), mmu-let-7c-5p(2), mmu-let-7d-5p(2), mmu-miR-98-5p(2), mmu-miR-32-5p(1), mmu-let-7e-5p(1), mmu-let-7b-5p(1), mmu-miR-30e-5p(1), mmu-miR-92a-3p(1), mmu-miR-30a-5p(1), mmu-miR-148a-3p(1), mmu-miR-30c-5p(1), mmu-miR-25-3p(1), mmu-miR-30d-5p(1), mmu-miR-30b-5p(1), mmu-miR-363-3p(1), mmu-miR-301b-3p(1), mmu-miR-758-3p(1), mmu-miR-301a-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GATCTCTGAAGAGACTTGTCAACTTT
siRNA sets
AAAGTTGACAAGTCTCTTC,GTTGACAAGTCTCTTCAGA,AAGTTGACAAGTCTCTTCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCGSAP_913_ORF_1
0.7272
0.089133537
0.922085047
837
ORF sequence:
ATGTGTTACAGCCCTAAGTCTGACTCACGGGAAGAAATCACATATTCAGTGTTCTACCTCCATAAAGGATACAGAAAGATCTTCACTGCAGCTCCTGGAAGTGCTGACTCACAGGTCACAAACGGTGCTGACTCACAGGTCACAGACGGCATCGCTTTCCTCAACCTTGGCTACTTTGTGGCTGTTTACTCCCCTGGCCATTTCCTTCATTTACTTAACATTCAGCATCCAGACTTGGTCTGCCACAGTCTGTTTCTGACAGGAAACAACAAAATAGCTGCTGTGCTACCTCCAAGTCCTTTGCAGTCCCTGCCGGGGTCCCTGGTTCTGGACTGCTATTCTGGAAAGGTCTATAGAGTAACCCTTGACCAGTCATACTTGTTGCGGTTCCTATGGAACGCCCATCTCGACTGTGAGAGAATGGCTGCACTGCACTGTATACTATCCTGTAGTCAAGACCCAGGTTTCCCGGAAGAACAGATTATCCAGTGGATTTCGGAGCATGTCTCTGCTTGCCATTCATTTGACCTCATTCAAGAATTTCTAATTGCTTCCTCCTATTGGAGTGTGTATGCAGAGCTGGACGACATGGGCATGCTCCTACAATACTCCTCTGTGCTGACTTGGAACACAGAAATTCCCGGAATAAAGTTTACGACAGAGGAACTCCCATTGCCTCTTATGAAGGTCTACGGCTTGAAGGGGTACTGGGCAAAGCTGAACTCCAACCTTGAGTACATTAAGTATACAAAACCTCACTTGCACTATCACAACAGCGTCGTGAGGAGGGAATGGCATAACCTGATCTCTGAAGAGACTTGTCAACTTTGGATATGA
Peptide sequence:
MCYSPKSDSREEITYSVFYLHKGYRKIFTAAPGSADSQVTNGADSQVTDGIAFLNLGYFVAVYSPGHFLHLLNIQHPDLVCHSLFLTGNNKIAAVLPPSPLQSLPGSLVLDCYSGKVYRVTLDQSYLLRFLWNAHLDCERMAALHCILSCSQDPGFPEEQIIQWISEHVSACHSFDLIQEFLIASSYWSVYAELDDMGMLLQYSSVLTWNTEIPGIKFTTEELPLPLMKVYGLKGYWAKLNSNLEYIKYTKPHLHYHNSVVRREWHNLISEETCQLWI
IRESfinder result
IRESfinder score
0.715529848
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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