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mmu_circGsap_828
Basic information of circular RNA
PanCircBase ID:
mmu_circGsap_828
mm39_Chr. Position ID:
chr5|21433021|21462921|+
Gene name:
Gsap
Transcript:
ENSMUST00000198014.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
12,13,14,15,16,17,18,19,20
Exon/intron offsets:
0,1137,14781,18875,22717,22915,25346,25935,29846
Genomic length:
29900
Exon/intron sizes in nt:
44,86,78,102,93,218,70,83,54
Flanking exon/introns:
chr5:21431831-21433021|chr5:21462921-21474899
Splice length:
828
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
TTTGAAATGCCCTTGGACATAACGTTAACTGGCTTGAGATTTAAACTTGTCAACTTTGGATATGACTATCGTCAAGACCGTGAGAAGCTGTGCAATCAGCCTTCTCTCTGCATTTTTACCAACCATACAGGGAGTTTGTGTATGTGTTACAGCCCTAAGTCTGACTCACGGGAAGAAATCACATATTCAGTGTTCTACCTCCATAAAGGATACAGAAAGATCTTCACTGCAGCTCCTGGAAGTGCTGACTCACAGGTCACAAACGGTGCTGACTCACAGGTCACAGACGGCATCGCTTTCCTCAACCTTGGCTACTTTGTGGCTGTTTACTCCCCTGGCCATTTCCTTCATTTACTTAACATTCAGCATCCAGACTTGGTCTGCCACAGTCTGTTTCTGACAGGAAACAACAAAATAGCTGCTGTGCTACCTCCAAGTCCTTTGCAGTCCCTGCCGGGGTCCCTGGTTCTGGACTGCTATTCTGGAAAGGTCTATAGAGTAACCCTTGACCAGTCATACTTGTTGCGGTTCCTATGGAACGCCCATCTCGACTGTGAGAGAATGGCTGCACTGCACTGTATACTATCCTGTAGTCAAGACCCAGGTTTCCCGGAAGAACAGATTATCCAGTGGATTTCGGAGCATGTCTCTGCTTGCCATTCATTTGACCTCATTCAAGAATTTCTAATTGCTTCCTCCTATTGGAGTGTGTATGCAGAGCTGGACGACATGGGCATGCTCCTACAATACTCCTCTGTGCTGACTTGGAACACAGAAATTCCCGGAATAAAGTTTACGACAGAGGAACTCCCATTGCCTCTTATGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACTCCTCTGTGCTGACTTGG
59.32
AGCTTCTCACGGTCTTGACG
60.04
169
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACTCCTCTGTGCTGACTTGG
59.32
GCTTCTCACGGTCTTGACGA
60.04
168
PCR template sequence:
CATGGGCATGCTCCTACAATACTCCTCTGTGCTGACTTGGAACACAGAAATTCCCGGAATAAAGTTTACGACAGAGGAACTCCCATTGCCTCTTATGAAGTTTGAAATGCCCTTGGACATAACGTTAACTGGCTTGAGATTTAAACTTGTCAACTTTGGATATGACTATCGTCAAGACCGTGAGAAGCTGTGCAATCAGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
18
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-216a-5p(1), mmu-miR-25-3p(1), mmu-miR-30d-5p(1), mmu-miR-30b-5p(1), mmu-miR-363-3p(1), mmu-miR-758-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GCCTCTTATGAAGTTTGAAATGCCCT
siRNA sets
CATTTCAAACTTCATAAGA, ATTTCAAACTTCATAAGAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCGSAP_828_ORF_1
0.7087
0.078738103
0.999742687
1650
ORF sequence:
ATGCCCTTGGACATAACGTTAACTGGCTTGAGATTTAAACTTGTCAACTTTGGATATGACTATCGTCAAGACCGTGAGAAGCTGTGCAATCAGCCTTCTCTCTGCATTTTTACCAACCATACAGGGAGTTTGTGTATGTGTTACAGCCCTAAGTCTGACTCACGGGAAGAAATCACATATTCAGTGTTCTACCTCCATAAAGGATACAGAAAGATCTTCACTGCAGCTCCTGGAAGTGCTGACTCACAGGTCACAAACGGTGCTGACTCACAGGTCACAGACGGCATCGCTTTCCTCAACCTTGGCTACTTTGTGGCTGTTTACTCCCCTGGCCATTTCCTTCATTTACTTAACATTCAGCATCCAGACTTGGTCTGCCACAGTCTGTTTCTGACAGGAAACAACAAAATAGCTGCTGTGCTACCTCCAAGTCCTTTGCAGTCCCTGCCGGGGTCCCTGGTTCTGGACTGCTATTCTGGAAAGGTCTATAGAGTAACCCTTGACCAGTCATACTTGTTGCGGTTCCTATGGAACGCCCATCTCGACTGTGAGAGAATGGCTGCACTGCACTGTATACTATCCTGTAGTCAAGACCCAGGTTTCCCGGAAGAACAGATTATCCAGTGGATTTCGGAGCATGTCTCTGCTTGCCATTCATTTGACCTCATTCAAGAATTTCTAATTGCTTCCTCCTATTGGAGTGTGTATGCAGAGCTGGACGACATGGGCATGCTCCTACAATACTCCTCTGTGCTGACTTGGAACACAGAAATTCCCGGAATAAAGTTTACGACAGAGGAACTCCCATTGCCTCTTATGAAGTTTGAAATGCCCTTGGACATAACGTTAACTGGCTTGAGATTTAAACTTGTCAACTTTGGATATGACTATCGTCAAGACCGTGAGAAGCTGTGCAATCAGCCTTCTCTCTGCATTTTTACCAACCATACAGGGAGTTTGTGTATGTGTTACAGCCCTAAGTCTGACTCACGGGAAGAAATCACATATTCAGTGTTCTACCTCCATAAAGGATACAGAAAGATCTTCACTGCAGCTCCTGGAAGTGCTGACTCACAGGTCACAAACGGTGCTGACTCACAGGTCACAGACGGCATCGCTTTCCTCAACCTTGGCTACTTTGTGGCTGTTTACTCCCCTGGCCATTTCCTTCATTTACTTAACATTCAGCATCCAGACTTGGTCTGCCACAGTCTGTTTCTGACAGGAAACAACAAAATAGCTGCTGTGCTACCTCCAAGTCCTTTGCAGTCCCTGCCGGGGTCCCTGGTTCTGGACTGCTATTCTGGAAAGGTCTATAGAGTAACCCTTGACCAGTCATACTTGTTGCGGTTCCTATGGAACGCCCATCTCGACTGTGAGAGAATGGCTGCACTGCACTGTATACTATCCTGTAGTCAAGACCCAGGTTTCCCGGAAGAACAGATTATCCAGTGGATTTCGGAGCATGTCTCTGCTTGCCATTCATTTGACCTCATTCAAGAATTTCTAATTGCTTCCTCCTATTGGAGTGTGTATGCAGAGCTGGACGACATGGGCATGCTCCTACAATACTCCTCTGTGCTGACTTGGAACACAGAAATTCCCGGAATAAAGTTTACGACAGAGGAACTCCCATTGCCTCTTATGAAG
Peptide sequence:
MPLDITLTGLRFKLVNFGYDYRQDREKLCNQPSLCIFTNHTGSLCMCYSPKSDSREEITYSVFYLHKGYRKIFTAAPGSADSQVTNGADSQVTDGIAFLNLGYFVAVYSPGHFLHLLNIQHPDLVCHSLFLTGNNKIAAVLPPSPLQSLPGSLVLDCYSGKVYRVTLDQSYLLRFLWNAHLDCERMAALHCILSCSQDPGFPEEQIIQWISEHVSACHSFDLIQEFLIASSYWSVYAELDDMGMLLQYSSVLTWNTEIPGIKFTTEELPLPLMKFEMPLDITLTGLRFKLVNFGYDYRQDREKLCNQPSLCIFTNHTGSLCMCYSPKSDSREEITYSVFYLHKGYRKIFTAAPGSADSQVTNGADSQVTDGIAFLNLGYFVAVYSPGHFLHLLNIQHPDLVCHSLFLTGNNKIAAVLPPSPLQSLPGSLVLDCYSGKVYRVTLDQSYLLRFLWNAHLDCERMAALHCILSCSQDPGFPEEQIIQWISEHVSACHSFDLIQEFLIASSYWSVYAELDDMGMLLQYSSVLTWNTEIPGIKFTTEELPLPLMK
IRESfinder result
IRESfinder score
0.759013699
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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