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mmu_circStxbp5l_1205
Basic information of circular RNA
PanCircBase ID:
mmu_circStxbp5l_1205
mm39_Chr. Position ID:
chr16|37020937|37076294|-
Gene name:
Stxbp5l
Transcript:
ENSMUST00000114787.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
18,17,16,15,14,13,12,11,10,9
Exon/intron offsets:
0,3830,7468,9594,14274,15347,35654,40763,47294,55233
Genomic length:
55357
Exon/intron sizes in nt:
1,26,17,32,18,41,68,14,00,00,00,00,000
Flanking exon/introns:
chr16:37009082-37020937|chr16:37076294-37082245
Splice length:
1205
Other database IDs:
CIRCpedia: MMU_CIRCpedia_18481, circAtlas: mmu-Stxbp5l_0051
CIRCpedia: HSA_CIRCpedia_355859
Human Ortholog IDs:
Mature spliced Sequence:
GCTATTCATTCAATTGATTGGCATCATGAGGGCAAACAATTCATGTGCAGCCACTCAGATGGTAGCTTGACTTTATGGAACCTGAAAAGCCCAAGCCGCCCTTTCCAAACCACAGTCCCACATGGAAAAAGTCAAAGAGAAGGAAGAAAGTCTGAGTCTTGTAAACCTATTCTTAAAGTAGAATACAAAACGTGCAGGAACAGTGAACCATTTATAATATTCTCTGGCGGGCTGTCATATGACAAAGCTTGCAGAAGACCAAGTTTAACCATCATGCATGGGAAAGCAATTACAGTGCTTGAGATGGATCATCCTATTGTTGAGTTTCTAACGTTATGTGAAACGCCCTATCCAAATGAATTTCAAGAACCCTATGCTGTTGCTGTACTTCTAGAGAAAGATCTCATCGTAGTTGACCTGACACAAACCAATTTTCCAATCTTTGAAAATCCATATCCAATGGACATTCATGAGTCACCTGTTACATGCACAGCATATTTTGCCGATTGCCCTCCAGATTTGATTCTAGTACTCTATTCTATAGGAGTCAAGCATAAAAAACAAGGATACAGTAATAAGGAATGGCCAGTCAGTGGAGGAGCTTGGAACCTCGGAGCACAAACTTATCCAGAAATTATTATTACTGGTCATGCTGATGGAACAATAAAATTTTGGGATGCTTCAGCAATGACACTGCAGATGTTGTACAAGCTAAAAACTTCCAAAGTGTTTGAAAAGCAGAAGGCAGGAGAAGGCAAACAGACGTGTGAACTTGTAGAGGAAGATCCCTTTGCTGTGCAGATGATCTACTGGTGTCCAGAGAGCAGAATATTTTGTGTCTCTGGAGTCTCTGCATATGTCATAATTTATAAATTCAGCAGACATGAAGTCACAACAGAAATAGTGTCACTAGAGGTACGACTTCAGTGTGATGTTGAAGACATTATTACTCCTGAGCCAGAAACAAGCCCTCCATTTCCAGATCTCTCCTCTCAACTTCCTCCTTCAAGGAGTCTTTCTGGAAGCACTAATACTGTGTCTAGTGAAGGAGTGACAAAGGACAGCATCCCGTGCCTCAGTGTTAAAACACGGCCAGTACGAATGCCGCCGGGCTATCAAGCAGATCTTGTTATTCAGTTGGTGTGGGTAGATGGTGAGCCTCCTCAGCAAATTACCAGCCTTTCTATAAGCTCAGCATATGGAAT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTGTGGGTAGATGGTGAGCC
60.11
GCTTGGGCTTTTCAGGTTCC
59.68
161
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTGTGGGTAGATGGTGAGCC
60.11
GGCTTGGGCTTTTCAGGTTC
59.68
162
PCR template sequence:
CGCCGGGCTATCAAGCAGATCTTGTTATTCAGTTGGTGTGGGTAGATGGTGAGCCTCCTCAGCAAATTACCAGCCTTTCTATAAGCTCAGCATATGGAATGCTATTCATTCAATTGATTGGCATCATGAGGGCAAACAATTCATGTGCAGCCACTCAGATGGTAGCTTGACTTTATGGAACCTGAAAAGCCCAAGCCGCC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-210-3p(1), mmu-miR-34a-5p(1), mmu-miR-411-3p(1), mmu-miR-194-5p(1), mmu-miR-362-5p(1), mmu-miR-34b-5p(1), mmu-miR-342-3p(1), mmu-miR-207(1), mmu-miR-5101(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
CAGCATATGGAATGCTATTCATTCAA
siRNA sets
AATGAATAGCATTCCATAT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSTXBP5L_1205_ORF_1
0.8064
-0.029549492
0.993153147
1233
ORF sequence:
ATGTGCAGCCACTCAGATGGTAGCTTGACTTTATGGAACCTGAAAAGCCCAAGCCGCCCTTTCCAAACCACAGTCCCACATGGAAAAAGTCAAAGAGAAGGAAGAAAGTCTGAGTCTTGTAAACCTATTCTTAAAGTAGAATACAAAACGTGCAGGAACAGTGAACCATTTATAATATTCTCTGGCGGGCTGTCATATGACAAAGCTTGCAGAAGACCAAGTTTAACCATCATGCATGGGAAAGCAATTACAGTGCTTGAGATGGATCATCCTATTGTTGAGTTTCTAACGTTATGTGAAACGCCCTATCCAAATGAATTTCAAGAACCCTATGCTGTTGCTGTACTTCTAGAGAAAGATCTCATCGTAGTTGACCTGACACAAACCAATTTTCCAATCTTTGAAAATCCATATCCAATGGACATTCATGAGTCACCTGTTACATGCACAGCATATTTTGCCGATTGCCCTCCAGATTTGATTCTAGTACTCTATTCTATAGGAGTCAAGCATAAAAAACAAGGATACAGTAATAAGGAATGGCCAGTCAGTGGAGGAGCTTGGAACCTCGGAGCACAAACTTATCCAGAAATTATTATTACTGGTCATGCTGATGGAACAATAAAATTTTGGGATGCTTCAGCAATGACACTGCAGATGTTGTACAAGCTAAAAACTTCCAAAGTGTTTGAAAAGCAGAAGGCAGGAGAAGGCAAACAGACGTGTGAACTTGTAGAGGAAGATCCCTTTGCTGTGCAGATGATCTACTGGTGTCCAGAGAGCAGAATATTTTGTGTCTCTGGAGTCTCTGCATATGTCATAATTTATAAATTCAGCAGACATGAAGTCACAACAGAAATAGTGTCACTAGAGGTACGACTTCAGTGTGATGTTGAAGACATTATTACTCCTGAGCCAGAAACAAGCCCTCCATTTCCAGATCTCTCCTCTCAACTTCCTCCTTCAAGGAGTCTTTCTGGAAGCACTAATACTGTGTCTAGTGAAGGAGTGACAAAGGACAGCATCCCGTGCCTCAGTGTTAAAACACGGCCAGTACGAATGCCGCCGGGCTATCAAGCAGATCTTGTTATTCAGTTGGTGTGGGTAGATGGTGAGCCTCCTCAGCAAATTACCAGCCTTTCTATAAGCTCAGCATATGGAATGCTATTCATTCAATTGATTGGCATCATGAGGGCAAACAATTCATGTGCAGCCACTCAGATGGTAGCTTGA
Peptide sequence:
MCSHSDGSLTLWNLKSPSRPFQTTVPHGKSQREGRKSESCKPILKVEYKTCRNSEPFIIFSGGLSYDKACRRPSLTIMHGKAITVLEMDHPIVEFLTLCETPYPNEFQEPYAVAVLLEKDLIVVDLTQTNFPIFENPYPMDIHESPVTCTAYFADCPPDLILVLYSIGVKHKKQGYSNKEWPVSGGAWNLGAQTYPEIIITGHADGTIKFWDASAMTLQMLYKLKTSKVFEKQKAGEGKQTCELVEEDPFAVQMIYWCPESRIFCVSGVSAYVIIYKFSRHEVTTEIVSLEVRLQCDVEDIITPEPETSPPFPDLSSQLPPSRSLSGSTNTVSSEGVTKDSIPCLSVKTRPVRMPPGYQADLVIQLVWVDGEPPQQITSLSISSAYGMLFIQLIGIMRANNSCAATQMVA
IRESfinder result
IRESfinder score
0.683228475
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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