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mmu_circTrappc8_1197
Basic information of circular RNA
PanCircBase ID:
mmu_circTrappc8_1197
mm39_Chr. Position ID:
chr18|20983954|20999263|-
Gene name:
Trappc8
Transcript:
ENSMUST00000225661.3
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
14,13,12,11,10,9,8,7
Exon/intron offsets:
0,1732,4047,9535,11997,12570,14129,15052
Genomic length:
15309
Exon/intron sizes in nt:
1,09,22,51,32,10,61,01,00,00,00,000
Flanking exon/introns:
chr18:20980369-20983954|chr18:20999263-21000816
Splice length:
1197
Other database IDs:
CIRCpedia: MMU_CIRCpedia_13060, circAtlas: mmu-Trappc8_0027
Human Ortholog IDs:
Mature spliced Sequence:
TAGATGGCCTACCAAATAACTTCAGAATTCATCCACTTCAAATAGACCAATGCGGTGACCCTCCTAACAATACTGACGGCTCAGAGTCAAAGTCTGCTTCTTCAGTTCACGAGACAAAGAAAGCAAGTACTGCAGTGATTCGTGGTGCTTGCTTAACACTCACTGACCATGATAGAATCCGACAGTTTATACAAGAGTTTACATTCCGTGGCCTTTTGCCACACATAGAGAAAACAATTCGTCAGTTAAATGATCAGCTAATATCAAGGAAAGGTTTGAGTCGATCTCTGTTTTCTGCCACTAAGAAATGGTTTAGTGGTAGTAAAGTTCCAGAAAAGAGCATTAATGAGCTGAAGAATACATCTGGGTTGTTGTATCCGCCAGAAGCGCCCGAGCTTCAGATCAGGAAGATGGCTGACTTGTGCTTCTTGGTGCAACATTATGATTTGGCTTACAGTTGTTATCACACTGCAAAGAAGGATTTTCTTAACGATCAAGCAATGCTTTATGCAGCAGGTGCCTTGGAAATGGCAGCAGTGTCAGCCTTTCTTCAGCCAGGAGCTCCTAGGCCATACCCTGCTCATTACATGGACACAGCAATTCAGACATACAGGGATATCTGCAAGAATATGGTGTTGGCTGAAAGATGTGTGTTGCTTAGTGCTGAAATTTTAAAAAGTCAAAGCAAGTACTCAGAGGCTGCAGCTCTTCTGATACGATTGACAAGTGAGGATTCTGATCTCCGAAGTGCCCTTCTTTTGGAACAGGCTGCACATTGCTTCATAAACATGAAGAGTCCCATGGTTAGAAAATACGCATTTCATATGATCCTGGCAGGCCACCGTTTTAGTAAAGCAGGGCAGAAAAAGCATGCTTTGCGCTGCTATTGTCAAGCCATGCAAGTTTACAAAGGAAAGGGCTGGTCTCTGGCAGAGGATCACATCAACTTCACCATTGGGCGCCAGTCCTATACTCTGAGGCAGCTGGACAATGCTGTTTCTGCTTTTAGACACATTTTAATCAATGAAAGCAAACAGTCTGCTGCTCAGCAAGGAGCCTTCCTCAGAGAATATCTTTATGTTTATAAGAATGTAAATCAGCTGTCACCAGATGGCCCTTTACCACAGCTTCCCTTACCATACATTAACAGTTCAGCAACACGGGTTTTCTTCGGCCATGACAGACGACCAGCAGATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GATGGCCCTTTACCACAGCT
60.03
TTAGGAGGGTCACCGCATTG
59.75
155
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGATGGCCCTTTACCACAGC
60.03
TTAGGAGGGTCACCGCATTG
59.75
156
PCR template sequence:
CAGCTGTCACCAGATGGCCCTTTACCACAGCTTCCCTTACCATACATTAACAGTTCAGCAACACGGGTTTTCTTCGGCCATGACAGACGACCAGCAGATGTAGATGGCCTACCAAATAACTTCAGAATTCATCCACTTCAAATAGACCAATGCGGTGACCCTCCTAACAATACTGACGGCTCAGAGTCAAAGTCTGCTTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
17
Interacting miRNAs (#binding sites)
mmu-miR-15b-5p(2), mmu-miR-124-3p(1), mmu-miR-15a-5p(1), mmu-miR-1a-3p(1), mmu-miR-206-3p(1), mmu-miR-103-3p(1), mmu-miR-322-5p(1), mmu-miR-29b-3p(1), mmu-miR-10a-5p(1), mmu-miR-503-5p(1), mmu-miR-22-3p(1), mmu-miR-127-5p(1), mmu-miR-297a-5p(1), mmu-miR-107-3p(1), mmu-miR-680(1), mmu-miR-466a-5p(1), mmu-miR-542-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CGACCAGCAGATGTAGATGGCCTACC
siRNA sets
TAGGCCATCTACATCTGCT, CATCTACATCTGCTGGTCG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTRAPPC8_1197_ORF_1
0.8002
0.050334626
0.999977563
1983
ORF sequence:
ATGGCTGACTTGTGCTTCTTGGTGCAACATTATGATTTGGCTTACAGTTGTTATCACACTGCAAAGAAGGATTTTCTTAACGATCAAGCAATGCTTTATGCAGCAGGTGCCTTGGAAATGGCAGCAGTGTCAGCCTTTCTTCAGCCAGGAGCTCCTAGGCCATACCCTGCTCATTACATGGACACAGCAATTCAGACATACAGGGATATCTGCAAGAATATGGTGTTGGCTGAAAGATGTGTGTTGCTTAGTGCTGAAATTTTAAAAAGTCAAAGCAAGTACTCAGAGGCTGCAGCTCTTCTGATACGATTGACAAGTGAGGATTCTGATCTCCGAAGTGCCCTTCTTTTGGAACAGGCTGCACATTGCTTCATAAACATGAAGAGTCCCATGGTTAGAAAATACGCATTTCATATGATCCTGGCAGGCCACCGTTTTAGTAAAGCAGGGCAGAAAAAGCATGCTTTGCGCTGCTATTGTCAAGCCATGCAAGTTTACAAAGGAAAGGGCTGGTCTCTGGCAGAGGATCACATCAACTTCACCATTGGGCGCCAGTCCTATACTCTGAGGCAGCTGGACAATGCTGTTTCTGCTTTTAGACACATTTTAATCAATGAAAGCAAACAGTCTGCTGCTCAGCAAGGAGCCTTCCTCAGAGAATATCTTTATGTTTATAAGAATGTAAATCAGCTGTCACCAGATGGCCCTTTACCACAGCTTCCCTTACCATACATTAACAGTTCAGCAACACGGGTTTTCTTCGGCCATGACAGACGACCAGCAGATGTAGATGGCCTACCAAATAACTTCAGAATTCATCCACTTCAAATAGACCAATGCGGTGACCCTCCTAACAATACTGACGGCTCAGAGTCAAAGTCTGCTTCTTCAGTTCACGAGACAAAGAAAGCAAGTACTGCAGTGATTCGTGGTGCTTGCTTAACACTCACTGACCATGATAGAATCCGACAGTTTATACAAGAGTTTACATTCCGTGGCCTTTTGCCACACATAGAGAAAACAATTCGTCAGTTAAATGATCAGCTAATATCAAGGAAAGGTTTGAGTCGATCTCTGTTTTCTGCCACTAAGAAATGGTTTAGTGGTAGTAAAGTTCCAGAAAAGAGCATTAATGAGCTGAAGAATACATCTGGGTTGTTGTATCCGCCAGAAGCGCCCGAGCTTCAGATCAGGAAGATGGCTGACTTGTGCTTCTTGGTGCAACATTATGATTTGGCTTACAGTTGTTATCACACTGCAAAGAAGGATTTTCTTAACGATCAAGCAATGCTTTATGCAGCAGGTGCCTTGGAAATGGCAGCAGTGTCAGCCTTTCTTCAGCCAGGAGCTCCTAGGCCATACCCTGCTCATTACATGGACACAGCAATTCAGACATACAGGGATATCTGCAAGAATATGGTGTTGGCTGAAAGATGTGTGTTGCTTAGTGCTGAAATTTTAAAAAGTCAAAGCAAGTACTCAGAGGCTGCAGCTCTTCTGATACGATTGACAAGTGAGGATTCTGATCTCCGAAGTGCCCTTCTTTTGGAACAGGCTGCACATTGCTTCATAAACATGAAGAGTCCCATGGTTAGAAAATACGCATTTCATATGATCCTGGCAGGCCACCGTTTTAGTAAAGCAGGGCAGAAAAAGCATGCTTTGCGCTGCTATTGTCAAGCCATGCAAGTTTACAAAGGAAAGGGCTGGTCTCTGGCAGAGGATCACATCAACTTCACCATTGGGCGCCAGTCCTATACTCTGAGGCAGCTGGACAATGCTGTTTCTGCTTTTAGACACATTTTAATCAATGAAAGCAAACAGTCTGCTGCTCAGCAAGGAGCCTTCCTCAGAGAATATCTTTATGTTTATAAGAATGTAAATCAGCTGTCACCAGATGGCCCTTTACCACAGCTTCCCTTACCATACATTAACAGTTCAGCAACACGGGTTTTCTTCGGCCATGACAGACGACCAGCAGAT
Peptide sequence:
MADLCFLVQHYDLAYSCYHTAKKDFLNDQAMLYAAGALEMAAVSAFLQPGAPRPYPAHYMDTAIQTYRDICKNMVLAERCVLLSAEILKSQSKYSEAAALLIRLTSEDSDLRSALLLEQAAHCFINMKSPMVRKYAFHMILAGHRFSKAGQKKHALRCYCQAMQVYKGKGWSLAEDHINFTIGRQSYTLRQLDNAVSAFRHILINESKQSAAQQGAFLREYLYVYKNVNQLSPDGPLPQLPLPYINSSATRVFFGHDRRPADVDGLPNNFRIHPLQIDQCGDPPNNTDGSESKSASSVHETKKASTAVIRGACLTLTDHDRIRQFIQEFTFRGLLPHIEKTIRQLNDQLISRKGLSRSLFSATKKWFSGSKVPEKSINELKNTSGLLYPPEAPELQIRKMADLCFLVQHYDLAYSCYHTAKKDFLNDQAMLYAAGALEMAAVSAFLQPGAPRPYPAHYMDTAIQTYRDICKNMVLAERCVLLSAEILKSQSKYSEAAALLIRLTSEDSDLRSALLLEQAAHCFINMKSPMVRKYAFHMILAGHRFSKAGQKKHALRCYCQAMQVYKGKGWSLAEDHINFTIGRQSYTLRQLDNAVSAFRHILINESKQSAAQQGAFLREYLYVYKNVNQLSPDGPLPQLPLPYINSSATRVFFGHDRRPAD
IRESfinder result
IRESfinder score
0.652759724
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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