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mmu_circGls_952
Basic information of circular RNA
PanCircBase ID:
mmu_circGls_952
mm39_Chr. Position ID:
chr1|52228581|52254853|-
Gene name:
Gls
Transcript:
ENSMUST00000114513.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
13,12,11,10,9,8,7,6,5,4
Exon/intron offsets:
0,1688,6742,7320,10288,10432,17878,22780,25055,26142
Genomic length:
26272
Exon/intron sizes in nt:
1,32,17,75,16,75,93,35,00,00,00,000
Flanking exon/introns:
chr1:52227930-52228581|chr1:52254853-52258646
Splice length:
952
Other database IDs:
circAtlas: mmu-Gls_0025
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_352990
Human Ortholog IDs:
Mature spliced Sequence:
GTGTGTTCAAAGCAACATTGTTTTGTTGACACAAGCATTTAGAAGAAAGTTTGTCATTCCTGACTTTATGTCTTTTACCTCACACATCGATGAGTTATATGAAAGTGCTAAAAAGCAGTCTGGAGGGAAGGTTGCTGATTATATTCCTCAGCTGGCCAAATTCAGTCCTGATTTGTGGGGTGTATCTGTCTGTACTGTAGATGGGCAAAGGCATTCTATTGGAGATACCAAAGTTCCTTTTTGTCTTCAGTCCTGTGTAAAACCCCTGAAATATGCAATTGCTGTTAATGACCTGGGAACTGAGTATGTACATCGCTATGTTGGGAAGGAGCCAAGTGGATTAAGATTCAACAAACTCTTTTTGAATGAAGATGATAAACCACATAATCCTATGGTAAATGCTGGAGCAATTGTTGTGACTTCTCTAATAAAGCAAGGAGTAAATAATGCTGAGAAGTTTGACTACGTGATGCAATTTTTGAATAAGATGGCTGGTAATGAATATGTTGGATTCAGTAATGCAACGTTTCAGTCTGAACGAGAAAGTGGAGATCGAAATTTTGCAATAGGATATTACTTAAAAGAAAAGAAGTGTTTTCCAGAAGGCACAGACATGGTTGGGATACTAGATTTTTACTTCCAGCTGTGCTCTATTGAAGTGACATGTGAATCAGCAAGTGTGATGGCTGCCACCTTGGCTAATGGTGGTTTCTGCCCAATTACTGGTGAAAGAGTCCTCAGTCCTGAGGCAGTTCGGAATACACTGAGCTTGATGCATTCTTGTGGCATGTATGACTTCTCAGGGCAGTTTGCGTTCCATGTTGGTCTTCCTGCAAAATCTGGAGTTGCTGGGGGTATTCTTTTAGTTGTCCCCAACGTCATGGGCATGATGTGTTGGTCTCCTCCTCTTGACAAGATGGGCAACAGTGTTAAGGGAATTCACTTTTGTCAC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGGCATGATGTGTTGGTCT
59.59
AACTCATCGATGTGTGAGGT
56.57
167
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATGGGCATGATGTGTTGGTCT
59.99
AACTCATCGATGTGTGAGGT
56.57
168
PCR template sequence:
GGGTATTCTTTTAGTTGTCCCCAACGTCATGGGCATGATGTGTTGGTCTCCTCCTCTTGACAAGATGGGCAACAGTGTTAAGGGAATTCACTTTTGTCACGTGTGTTCAAAGCAACATTGTTTTGTTGACACAAGCATTTAGAAGAAAGTTTGTCATTCCTGACTTTATGTCTTTTACCTCACACATCGATGAGTTATAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
12
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-322-5p(1), mmu-miR-101b-3p(1), mmu-miR-125b-5p(1), mmu-miR-139-5p(1), mmu-miR-351-5p(1), mmu-miR-194-5p(1), mmu-miR-224-5p(1), mmu-miR-466a-5p(1), mmu-miR-410-3p(1), mmu-miR-3065-5p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TCACTTTTGTCACGTGTGTTCAAAGC
siRNA sets
AACACACGTGACAAAAGTG, GAACACACGTGACAAAAGT, TTTGAACACACGTGACAAA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCGLS_952_ORF_1
0.9763
-0.008636802
0.960158584
927
ORF sequence:
ATGTCTTTTACCTCACACATCGATGAGTTATATGAAAGTGCTAAAAAGCAGTCTGGAGGGAAGGTTGCTGATTATATTCCTCAGCTGGCCAAATTCAGTCCTGATTTGTGGGGTGTATCTGTCTGTACTGTAGATGGGCAAAGGCATTCTATTGGAGATACCAAAGTTCCTTTTTGTCTTCAGTCCTGTGTAAAACCCCTGAAATATGCAATTGCTGTTAATGACCTGGGAACTGAGTATGTACATCGCTATGTTGGGAAGGAGCCAAGTGGATTAAGATTCAACAAACTCTTTTTGAATGAAGATGATAAACCACATAATCCTATGGTAAATGCTGGAGCAATTGTTGTGACTTCTCTAATAAAGCAAGGAGTAAATAATGCTGAGAAGTTTGACTACGTGATGCAATTTTTGAATAAGATGGCTGGTAATGAATATGTTGGATTCAGTAATGCAACGTTTCAGTCTGAACGAGAAAGTGGAGATCGAAATTTTGCAATAGGATATTACTTAAAAGAAAAGAAGTGTTTTCCAGAAGGCACAGACATGGTTGGGATACTAGATTTTTACTTCCAGCTGTGCTCTATTGAAGTGACATGTGAATCAGCAAGTGTGATGGCTGCCACCTTGGCTAATGGTGGTTTCTGCCCAATTACTGGTGAAAGAGTCCTCAGTCCTGAGGCAGTTCGGAATACACTGAGCTTGATGCATTCTTGTGGCATGTATGACTTCTCAGGGCAGTTTGCGTTCCATGTTGGTCTTCCTGCAAAATCTGGAGTTGCTGGGGGTATTCTTTTAGTTGTCCCCAACGTCATGGGCATGATGTGTTGGTCTCCTCCTCTTGACAAGATGGGCAACAGTGTTAAGGGAATTCACTTTTGTCACGTGTGTTCAAAGCAACATTGTTTTGTTGACACAAGCATTTAG
Peptide sequence:
MSFTSHIDELYESAKKQSGGKVADYIPQLAKFSPDLWGVSVCTVDGQRHSIGDTKVPFCLQSCVKPLKYAIAVNDLGTEYVHRYVGKEPSGLRFNKLFLNEDDKPHNPMVNAGAIVVTSLIKQGVNNAEKFDYVMQFLNKMAGNEYVGFSNATFQSERESGDRNFAIGYYLKEKKCFPEGTDMVGILDFYFQLCSIEVTCESASVMAATLANGGFCPITGERVLSPEAVRNTLSLMHSCGMYDFSGQFAFHVGLPAKSGVAGGILLVVPNVMGMMCWSPPLDKMGNSVKGIHFCHVCSKQHCFVDTSI
IRESfinder result
IRESfinder score
0.62363629
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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