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mmu_circSpg11_1144
Basic information of circular RNA
PanCircBase ID:
mmu_circSpg11_1144
mm39_Chr. Position ID:
chr2|121918613|121927912|-
Gene name:
Spg11
Transcript:
ENSMUST00000036450.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
16,15,14,13,12,11,10
Exon/intron offsets:
0,4024,4832,5283,6325,7457,9123
Genomic length:
9299
Exon/intron sizes in nt:
2,04,21,11,76,12,87,21,00,000
Flanking exon/introns:
chr2:121917450-121918613|chr2:121927912-121928581
Splice length:
1144
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
AGCTAGATGAGCATTTTCAGAAAGGAGTGGCCATTTTGACCAGCTACATCAATGAGCTTCGGACTTTTATGATAAAGTTTCCTTGGAAACCAGGAGATGCCATAGATGAATCTGATGTAAATGAAGGTGTCGTCACAGTGAAGGAGGACCGGGTTTGGGAGGAACTCAGCTTTGAGGAAGTTATTGCTGATGCCATTTTAAATAACAGAATACCAGAGGCACAAACTTTCTTTAGGATTAGTGGTCATTCCGCTCAACGACTGGAGGAACTGGTTAGGATCGGCCTAGATCTGGCATTTGACAGTTTAAAAAAGAACAACGTGGAGGAGGCCTCGAGGCTCCTGAGGAACATGGGCTTCAGTGTGGAAGATGAGTTGCTTAAGATATGCTTTTATACAACTGATAAAAATATACGGGACTTTTTGGTTGAAATTTTAAAAGAAAAGGAATGTTTTTCTGAAAAAGAAAGAAGAACTGTAGACTTTGTTCATCAACTTGAAGCACTTTATTCTGGACACTTCCAGGAAAATGCACAGACGCAGGCTTTCCCCAGGTATTGGATAAAGGAACAGGACTGTTTCAAACACAAATCTGTCTTGGACACATTCCTCAAATATGATAAAAAAGATGAGTTTCACAAACAGGACCATAGAATTGCATTGAATTGGGCTCACCGGTGGGATCTCCAAACACAGGAATGTATCCTTCTCCGCAGACTAAGTCCAGAAGAATACAAAGCGCGCTCCCCGGAAGCCCTGTGGAGACACCTCACGGCTCGCCATGACTGCTCAAGCATCAGCTTGTGGATGGAAGAATTTCAGACCCAGGAAACCGAGTCACCTCAGCAGAGCAAGTGGCCCCCTCTGAGTGCTGACATCATTGAGCAGGGCACTTGCTGCCACAGTCACATGAGGAATGAGATTTTAGACAAGCTGGCCAGAAGTGGCATTTTTCTTGCATCTGAGCTGGAAGACTTTGAACGTCTCCTCCTGAGGCTGAGCCGGATTGGGGGCGTAATGCAGGACAGCCTCCCCGTGCAGAGCTACAAATCCCGTGCAGGGTGTGACTTTCATTCCCGGTTCATCCTCTACTGTTTAGAGCACGGCCTACAGCATCTTCTCTACACCTATCTTGACTATTACAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTTAGAGCACGGCCTACAGC
60.11
GCATCTCCTGGTTTCCAAGGA
60
151
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CACGGCCTACAGCATCTTCT
59.82
GCATCTCCTGGTTTCCAAGGA
60
144
PCR template sequence:
ACAAATCCCGTGCAGGGTGTGACTTTCATTCCCGGTTCATCCTCTACTGTTTAGAGCACGGCCTACAGCATCTTCTCTACACCTATCTTGACTATTACAAAGCTAGATGAGCATTTTCAGAAAGGAGTGGCCATTTTGACCAGCTACATCAATGAGCTTCGGACTTTTATGATAAAGTTTCCTTGGAAACCAGGAGATGC
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-miR-20b-5p(1), mmu-miR-106a-5p(1), mmu-miR-93-5p(1), mmu-miR-20a-5p(1), mmu-miR-17-5p(1), mmu-miR-206-3p(1), mmu-miR-150-5p(1), mmu-miR-205-5p(1), mmu-miR-106b-5p(1), mmu-miR-320-3p(1), mmu-miR-139-5p(1), mmu-miR-24-3p(1), mmu-miR-29b-1-5p(1), mmu-miR-301b-3p(1), mmu-miR-301a-3p(1), mmu-miR-680(1), mmu-miR-29b-2-5p(1), mmu-miR-300-3p(1), mmu-miR-344-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTGACTATTACAAAGCTAGATGAGCA
siRNA sets
ATCTAGCTTTGTAATAGTC, CATCTAGCTTTGTAATAGT, TCTAGCTTTGTAATAGTCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSPG11_1144_ORF_1
0.9206
0.120381896
0.991375814
1086
ORF sequence:
ATGATAAAGTTTCCTTGGAAACCAGGAGATGCCATAGATGAATCTGATGTAAATGAAGGTGTCGTCACAGTGAAGGAGGACCGGGTTTGGGAGGAACTCAGCTTTGAGGAAGTTATTGCTGATGCCATTTTAAATAACAGAATACCAGAGGCACAAACTTTCTTTAGGATTAGTGGTCATTCCGCTCAACGACTGGAGGAACTGGTTAGGATCGGCCTAGATCTGGCATTTGACAGTTTAAAAAAGAACAACGTGGAGGAGGCCTCGAGGCTCCTGAGGAACATGGGCTTCAGTGTGGAAGATGAGTTGCTTAAGATATGCTTTTATACAACTGATAAAAATATACGGGACTTTTTGGTTGAAATTTTAAAAGAAAAGGAATGTTTTTCTGAAAAAGAAAGAAGAACTGTAGACTTTGTTCATCAACTTGAAGCACTTTATTCTGGACACTTCCAGGAAAATGCACAGACGCAGGCTTTCCCCAGGTATTGGATAAAGGAACAGGACTGTTTCAAACACAAATCTGTCTTGGACACATTCCTCAAATATGATAAAAAAGATGAGTTTCACAAACAGGACCATAGAATTGCATTGAATTGGGCTCACCGGTGGGATCTCCAAACACAGGAATGTATCCTTCTCCGCAGACTAAGTCCAGAAGAATACAAAGCGCGCTCCCCGGAAGCCCTGTGGAGACACCTCACGGCTCGCCATGACTGCTCAAGCATCAGCTTGTGGATGGAAGAATTTCAGACCCAGGAAACCGAGTCACCTCAGCAGAGCAAGTGGCCCCCTCTGAGTGCTGACATCATTGAGCAGGGCACTTGCTGCCACAGTCACATGAGGAATGAGATTTTAGACAAGCTGGCCAGAAGTGGCATTTTTCTTGCATCTGAGCTGGAAGACTTTGAACGTCTCCTCCTGAGGCTGAGCCGGATTGGGGGCGTAATGCAGGACAGCCTCCCCGTGCAGAGCTACAAATCCCGTGCAGGGTGTGACTTTCATTCCCGGTTCATCCTCTACTGTTTAGAGCACGGCCTACAGCATCTTCTCTACACCTATCTTGACTATTACAAAGCTAGATGA
Peptide sequence:
MIKFPWKPGDAIDESDVNEGVVTVKEDRVWEELSFEEVIADAILNNRIPEAQTFFRISGHSAQRLEELVRIGLDLAFDSLKKNNVEEASRLLRNMGFSVEDELLKICFYTTDKNIRDFLVEILKEKECFSEKERRTVDFVHQLEALYSGHFQENAQTQAFPRYWIKEQDCFKHKSVLDTFLKYDKKDEFHKQDHRIALNWAHRWDLQTQECILLRRLSPEEYKARSPEALWRHLTARHDCSSISLWMEEFQTQETESPQQSKWPPLSADIIEQGTCCHSHMRNEILDKLARSGIFLASELEDFERLLLRLSRIGGVMQDSLPVQSYKSRAGCDFHSRFILYCLEHGLQHLLYTYLDYYKAR
IRESfinder result
IRESfinder score
0.66148754
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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