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mmu_circGsap_698
Basic information of circular RNA
PanCircBase ID:
mmu_circGsap_698
mm39_Chr. Position ID:
chr5|21447802|21462921|+
Gene name:
Gsap
Transcript:
ENSMUST00000198014.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
14,15,16,17,18,19,20
Exon/intron offsets:
0,4094,7936,8134,10565,11154,15065
Genomic length:
15119
Exon/intron sizes in nt:
78,102,93,218,70,83,54
Flanking exon/introns:
chr5:21434244-21447802|chr5:21462921-21474899
Splice length:
698
Other database IDs:
circAtlas: mmu-Gsap_0028
circBase: hsa_circ_0080823, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_59009
Human Ortholog IDs:
Mature spliced Sequence:
GGAGTTTGTGTATGTGTTACAGCCCTAAGTCTGACTCACGGGAAGAAATCACATATTCAGTGTTCTACCTCCATAAAGGATACAGAAAGATCTTCACTGCAGCTCCTGGAAGTGCTGACTCACAGGTCACAAACGGTGCTGACTCACAGGTCACAGACGGCATCGCTTTCCTCAACCTTGGCTACTTTGTGGCTGTTTACTCCCCTGGCCATTTCCTTCATTTACTTAACATTCAGCATCCAGACTTGGTCTGCCACAGTCTGTTTCTGACAGGAAACAACAAAATAGCTGCTGTGCTACCTCCAAGTCCTTTGCAGTCCCTGCCGGGGTCCCTGGTTCTGGACTGCTATTCTGGAAAGGTCTATAGAGTAACCCTTGACCAGTCATACTTGTTGCGGTTCCTATGGAACGCCCATCTCGACTGTGAGAGAATGGCTGCACTGCACTGTATACTATCCTGTAGTCAAGACCCAGGTTTCCCGGAAGAACAGATTATCCAGTGGATTTCGGAGCATGTCTCTGCTTGCCATTCATTTGACCTCATTCAAGAATTTCTAATTGCTTCCTCCTATTGGAGTGTGTATGCAGAGCTGGACGACATGGGCATGCTCCTACAATACTCCTCTGTGCTGACTTGGAACACAGAAATTCCCGGAATAAAGTTTACGACAGAGGAACTCCCATTGCCTCTTATGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CATGGGCATGCTCCTACAAT
58.01
CCGTGAGTCAGACTTAGGGC
59.83
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CATGGGCATGCTCCTACAAT
58.01
CCCGTGAGTCAGACTTAGGG
59.18
142
PCR template sequence:
CATGGGCATGCTCCTACAATACTCCTCTGTGCTGACTTGGAACACAGAAATTCCCGGAATAAAGTTTACGACAGAGGAACTCCCATTGCCTCTTATGAAGGGAGTTTGTGTATGTGTTACAGCCCTAAGTCTGACTCACGGGAAGAAATCACATATTCAGTGTTCTACCTCCATAAAGGATACAGAAAGATCTTCACTGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
13
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-let-7e-5p(1), mmu-let-7b-5p(1), mmu-miR-30e-5p(1), mmu-miR-30a-5p(1), mmu-miR-148a-3p(1), mmu-miR-30c-5p(1), mmu-miR-30d-5p(1), mmu-miR-30b-5p(1), mmu-miR-758-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GCCTCTTATGAAGGGAGTTTGTGTAT
siRNA sets
ATACACAAACTCCCTTCAT, ACAAACTCCCTTCATAAGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCGSAP_698_ORF_1
0.5422
0.029455397
0.94041855
957
ORF sequence:
ATGTGTTACAGCCCTAAGTCTGACTCACGGGAAGAAATCACATATTCAGTGTTCTACCTCCATAAAGGATACAGAAAGATCTTCACTGCAGCTCCTGGAAGTGCTGACTCACAGGTCACAAACGGTGCTGACTCACAGGTCACAGACGGCATCGCTTTCCTCAACCTTGGCTACTTTGTGGCTGTTTACTCCCCTGGCCATTTCCTTCATTTACTTAACATTCAGCATCCAGACTTGGTCTGCCACAGTCTGTTTCTGACAGGAAACAACAAAATAGCTGCTGTGCTACCTCCAAGTCCTTTGCAGTCCCTGCCGGGGTCCCTGGTTCTGGACTGCTATTCTGGAAAGGTCTATAGAGTAACCCTTGACCAGTCATACTTGTTGCGGTTCCTATGGAACGCCCATCTCGACTGTGAGAGAATGGCTGCACTGCACTGTATACTATCCTGTAGTCAAGACCCAGGTTTCCCGGAAGAACAGATTATCCAGTGGATTTCGGAGCATGTCTCTGCTTGCCATTCATTTGACCTCATTCAAGAATTTCTAATTGCTTCCTCCTATTGGAGTGTGTATGCAGAGCTGGACGACATGGGCATGCTCCTACAATACTCCTCTGTGCTGACTTGGAACACAGAAATTCCCGGAATAAAGTTTACGACAGAGGAACTCCCATTGCCTCTTATGAAGGGAGTTTGTGTATGTGTTACAGCCCTAAGTCTGACTCACGGGAAGAAATCACATATTCAGTGTTCTACCTCCATAAAGGATACAGAAAGATCTTCACTGCAGCTCCTGGAAGTGCTGACTCACAGGTCACAAACGGTGCTGACTCACAGGTCACAGACGGCATCGCTTTCCTCAACCTTGGCTACTTTGTGGCTGTTTACTCCCCTGGCCATTTCCTTCATTTACTTAACATTCAGCATCCAGACTTGGTCTGCCACAGTCTGTTTCTGA
Peptide sequence:
MCYSPKSDSREEITYSVFYLHKGYRKIFTAAPGSADSQVTNGADSQVTDGIAFLNLGYFVAVYSPGHFLHLLNIQHPDLVCHSLFLTGNNKIAAVLPPSPLQSLPGSLVLDCYSGKVYRVTLDQSYLLRFLWNAHLDCERMAALHCILSCSQDPGFPEEQIIQWISEHVSACHSFDLIQEFLIASSYWSVYAELDDMGMLLQYSSVLTWNTEIPGIKFTTEELPLPLMKGVCVCVTALSLTHGKKSHIQCSTSIKDTERSSLQLLEVLTHRSQTVLTHRSQTASLSSTLATLWLFTPLAISFIYLTFSIQTWSATVCF
IRESfinder result
IRESfinder score
0.751644515
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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