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mmu_circGart_1548
Basic information of circular RNA
PanCircBase ID:
mmu_circGart_1548
mm39_Chr. Position ID:
chr16|91427493|91440034|-
Gene name:
Gart
Transcript:
ENSMUST00000023684.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
12
Exon/intron indexes:
13,12,11,10,9,8,7,6,5,4,3,2
Exon/intron offsets:
0,371,3269,5388,5901,6386,7324,8121,8734,10606,10988,12351
Genomic length:
12541
Exon/intron sizes in nt:
11,09,52,32,16,98,68,80,00,00,00,00,00,00,000
Flanking exon/introns:
chr16:91427129-91427493|chr16:91440034-91443771
Splice length:
1548
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
CAGGTGGTTGCATTTTGTTTCTGAATCCCTGCTTCGGAGACAGCCATGGCAGCCCGAGTTCTTGTCATCGGTAGCGGGGGAAGGGAACATACCCTGGCCTGGAAGCTCGCACAGTCTCCTCAGGTCAAGCAAGTGTTGGTTGCCCCAGGAAACGCAGGCACTGCGTGCGCTGGGAAGATCTCCAATGCTGCTGTCTCTGTCAATGATCACAGTGCCCTCGCTCAGTTCTGCAAGGATGAAAAGATTGAACTCGTAGTTGTCGGACCAGAGGCCCCTCTGGCTGCAGGAATTGTTGGGGACCTGACCTCTGCAGGAGTACGATGCTTTGGCCCCACAGCACAAGCAGCTCAATTAGAGTCCAGTAAGAAGTTTGCTAAAGAGTTTATGGACCGCCATGAAATCCCAACTGCACAGTGGAGAGCATTCACCAACCCTGAAGATGCCTGCAGCTTTATTACAAGCGCGAACTTTCCTGCTTTGGTTGTGAAGGCCAGTGGCCTTGCAGCAGGGAAGGGAGTGATTGTGGCCAAGAGCCAAGCGGAGGCCTGCAGAGCTGTACAGGAGATCATGCAAGAAAAGTCTTTCGGAGCAGCTGGTGAAACAGTTGTTGTGGAAGAGTTTCTGGAAGGGGAAGAAGTGTCTTGCCTTTGCTTCACTGACGGGAAGACGGTGGCCGAAATGCCCCCAGCACAAGACCATAAGCGATTGCTGGATGGAGACGAAGGCCCCAACACCGGGGGGATGGGAGCCTACTGCCCAGCACCTCAGGTTTCTAAGGACTTGTTAGTAAAAATTAAGAACACTATTCTTCAGAGAGCAGTAGACGGCATGCAGCAGGAGGGTGCGCCGTACACAGGAATTCTTTATGCTGGTATAATGCTGACCAAAGATGGCCCAAAAGTGTTGGAGTTTAATTGCCGCTTTGGTGATCCGGAATGCCAGGTCATCCTCCCACTTCTTAAAAGTGACCTCTATGAGGTGATGCAGTCCACCTTGGATGGCCTGCTGAGCGCGTCTCTGCCTGTTTGGCTAGAAAACCACAGTGCCGTAACCGTCGTCATGGCGAGTAAAGGGTACCCTGGAGCCTACACCAAAGGCGTGGAGATTACAGGGTTTCCTGAGGCCCAGGCTTTAGGACTGCAGGTATTCCATGCAGGCACTGCTCTTAAAGATGGCAAAGTAGTGACCAGCGGGGGCAGGGTCCTCACCGTGACAGCTGTCCAGGAAAATCTCATGTCAGCCCTTGCTGAGGCCAGGAAAGGACTCGCTGCTCTAAAGTTTGAGGGAGCCATCTATAGAAAGGACATTGGCTTCCGTGCTGTGGCCTTCCTCCAGCGGCCCAGGGGCTTGACTTACAAGGACTCCGGAGTAGACATCGCAGCTGGAAATATGCTGGTTAAGAAAATTCAGCCTTTAGCAAAAGCCACCTCCAGACCAGGCTGCAGTGTTGACCTTGGGGGCTTTGCTGGTCTTTTTGATTTGAAAGCAGCTGGTTTCAAAGATCCTCTTCTGGCCTCTGGAACAGATGGTGTGGGAACTAAACTAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGGGCTTTGCTGGTCTTTTT
59.24
CGATGACAAGAACTCGGGCT
60.11
162
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGGGCTTTGCTGGTCTTTTT
59.24
CCCGCTACCGATGACAAGAA
59.83
170
PCR template sequence:
TGACCTTGGGGGCTTTGCTGGTCTTTTTGATTTGAAAGCAGCTGGTTTCAAAGATCCTCTTCTGGCCTCTGGAACAGATGGTGTGGGAACTAAACTAAAGCAGGTGGTTGCATTTTGTTTCTGAATCCCTGCTTCGGAGACAGCCATGGCAGCCCGAGTTCTTGTCATCGGTAGCGGGGGAAGGGAACATACCCTGGCCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
24
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-103-3p(1), mmu-miR-31-5p(1), mmu-miR-322-5p(1), mmu-miR-298-5p(1), mmu-miR-217-5p(1), mmu-miR-10a-5p(1), mmu-miR-214-3p(1), mmu-miR-503-5p(1), mmu-miR-433-5p(1), mmu-miR-541-5p(1), mmu-miR-362-5p(1), mmu-miR-107-3p(1), mmu-miR-705(1), mmu-miR-680(1), mmu-miR-690(1), mmu-miR-335-3p(1), mmu-miR-532-5p(1), mmu-miR-193b-3p(1), mmu-miR-296-3p(1), mmu-miR-338-3p(1), mmu-miR-7a-2-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AACTAAACTAAAGCAGGTGGTTGCAT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCGART_1548_ORF_1
1.042
0.220334522
0.999805031
1527
ORF sequence:
ATGGCAGCCCGAGTTCTTGTCATCGGTAGCGGGGGAAGGGAACATACCCTGGCCTGGAAGCTCGCACAGTCTCCTCAGGTCAAGCAAGTGTTGGTTGCCCCAGGAAACGCAGGCACTGCGTGCGCTGGGAAGATCTCCAATGCTGCTGTCTCTGTCAATGATCACAGTGCCCTCGCTCAGTTCTGCAAGGATGAAAAGATTGAACTCGTAGTTGTCGGACCAGAGGCCCCTCTGGCTGCAGGAATTGTTGGGGACCTGACCTCTGCAGGAGTACGATGCTTTGGCCCCACAGCACAAGCAGCTCAATTAGAGTCCAGTAAGAAGTTTGCTAAAGAGTTTATGGACCGCCATGAAATCCCAACTGCACAGTGGAGAGCATTCACCAACCCTGAAGATGCCTGCAGCTTTATTACAAGCGCGAACTTTCCTGCTTTGGTTGTGAAGGCCAGTGGCCTTGCAGCAGGGAAGGGAGTGATTGTGGCCAAGAGCCAAGCGGAGGCCTGCAGAGCTGTACAGGAGATCATGCAAGAAAAGTCTTTCGGAGCAGCTGGTGAAACAGTTGTTGTGGAAGAGTTTCTGGAAGGGGAAGAAGTGTCTTGCCTTTGCTTCACTGACGGGAAGACGGTGGCCGAAATGCCCCCAGCACAAGACCATAAGCGATTGCTGGATGGAGACGAAGGCCCCAACACCGGGGGGATGGGAGCCTACTGCCCAGCACCTCAGGTTTCTAAGGACTTGTTAGTAAAAATTAAGAACACTATTCTTCAGAGAGCAGTAGACGGCATGCAGCAGGAGGGTGCGCCGTACACAGGAATTCTTTATGCTGGTATAATGCTGACCAAAGATGGCCCAAAAGTGTTGGAGTTTAATTGCCGCTTTGGTGATCCGGAATGCCAGGTCATCCTCCCACTTCTTAAAAGTGACCTCTATGAGGTGATGCAGTCCACCTTGGATGGCCTGCTGAGCGCGTCTCTGCCTGTTTGGCTAGAAAACCACAGTGCCGTAACCGTCGTCATGGCGAGTAAAGGGTACCCTGGAGCCTACACCAAAGGCGTGGAGATTACAGGGTTTCCTGAGGCCCAGGCTTTAGGACTGCAGGTATTCCATGCAGGCACTGCTCTTAAAGATGGCAAAGTAGTGACCAGCGGGGGCAGGGTCCTCACCGTGACAGCTGTCCAGGAAAATCTCATGTCAGCCCTTGCTGAGGCCAGGAAAGGACTCGCTGCTCTAAAGTTTGAGGGAGCCATCTATAGAAAGGACATTGGCTTCCGTGCTGTGGCCTTCCTCCAGCGGCCCAGGGGCTTGACTTACAAGGACTCCGGAGTAGACATCGCAGCTGGAAATATGCTGGTTAAGAAAATTCAGCCTTTAGCAAAAGCCACCTCCAGACCAGGCTGCAGTGTTGACCTTGGGGGCTTTGCTGGTCTTTTTGATTTGAAAGCAGCTGGTTTCAAAGATCCTCTTCTGGCCTCTGGAACAGATGGTGTGGGAACTAAACTAAAGCAGGTGGTTGCATTTTGTTTCTGA
Peptide sequence:
MAARVLVIGSGGREHTLAWKLAQSPQVKQVLVAPGNAGTACAGKISNAAVSVNDHSALAQFCKDEKIELVVVGPEAPLAAGIVGDLTSAGVRCFGPTAQAAQLESSKKFAKEFMDRHEIPTAQWRAFTNPEDACSFITSANFPALVVKASGLAAGKGVIVAKSQAEACRAVQEIMQEKSFGAAGETVVVEEFLEGEEVSCLCFTDGKTVAEMPPAQDHKRLLDGDEGPNTGGMGAYCPAPQVSKDLLVKIKNTILQRAVDGMQQEGAPYTGILYAGIMLTKDGPKVLEFNCRFGDPECQVILPLLKSDLYEVMQSTLDGLLSASLPVWLENHSAVTVVMASKGYPGAYTKGVEITGFPEAQALGLQVFHAGTALKDGKVVTSGGRVLTVTAVQENLMSALAEARKGLAALKFEGAIYRKDIGFRAVAFLQRPRGLTYKDSGVDIAAGNMLVKKIQPLAKATSRPGCSVDLGGFAGLFDLKAAGFKDPLLASGTDGVGTKLKQVVAFCF
IRESfinder result
IRESfinder score
0.427577216
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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