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mmu_circSort1_931_2
Basic information of circular RNA
PanCircBase ID:
mmu_circSort1_931_2
mm39_Chr. Position ID:
chr3|108232964|108252272|+
Gene name:
Sort1
Transcript:
ENSMUST00000135636.6
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
5,6,7,8,9,10,11,12
Exon/intron offsets:
0,2359,6262,8917,12142,13162,14950,19205
Genomic length:
19308
Exon/intron sizes in nt:
1,65,74,50,13,11,45,15,00,00,000
Flanking exon/introns:
chr3:108232014-108232964|chr3:108252272-108253029
Splice length:
931
Other database IDs:
CIRCpedia: MMU_CIRCpedia_2291, circAtlas: mmu-Sort1_0017
Human Ortholog IDs:
Mature spliced Sequence:
GTGATACTAACAGCGGAGGTGTCCGGGGGAAGCCGAGGCGGAAGAGTGTTCAGGTCATCAGACTTTGCCAAGAACTTTGTGCAAACAGATCTCCCCTTTCATCCTCTGACGCAGATGATGTACAGCCCTCAGAATTCTGATTACCTGTTAGCTCTCAGCACCGAAAATGGCCTGTGGGTGTCCAAGAATTTTGGGGAAAAATGGGAAGAAATCCACAAAGCAGTATGTTTGGCCAAATGGGGACCAAACAACATCATCTTCTTTACCACCCATGTGAATGGCTCCTGCAAAGCTGATCTTGGTGCCCTGGAATTATGGAGAACATCCGACTTGGGAAAAACCTTCAAAACCATTGGTGTGAAAATCTACTCCTTTGGTCTTGGGGGCCGTTTCCTTTTTGCCTCTGTGATGGCTGATAAGGACACAACAAGAAGGATCCATGTGTCAACAGACCAGGGGGACACATGGAGCATGGCACAACTTCCTTCTGTGGGACAGGAACAGTTCTACTCCATCCTGGCAGCCAATGAGGACATGGTCTTCATGCATGTAGATGAACCTGGAGATACCGGGTTTGGCACCATCTTTACCTCTGATGATCGAGGCATTGTCTACTCCAAGTCTCTGGACAGACATCTCTATACCACCACAGGCGGGGAGACGGACTTTACCAACGTGACTTCCCTCCGTGGGGTCTATATAACAAGCACGCTCTCAGAAGATAACTCTATTCAGAGCATGATCACTTTTGACCAGGGAGGACGGTGGGAGCACCTGCGGAAGCCGGAGAACAGCAAGTGCGACGCTACCGCAAAGAACAAGAACGAGTGCAGCCTTCATATCCATGCTTCTTATAGCATCTCCCAGAAGCTAAACGTTCCAATGGCCCCACTTTCCGAGCCCAATGCTGTGGGCATAGTCATCGCTCACG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TAAACGTTCCAATGGCCCCA
59.89
AGGGGAGATCTGTTTGCACA
58.93
157
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCTAAACGTTCCAATGGCCC
59.83
AGGGGAGATCTGTTTGCACA
58.93
159
PCR template sequence:
AGCCTTCATATCCATGCTTCTTATAGCATCTCCCAGAAGCTAAACGTTCCAATGGCCCCACTTTCCGAGCCCAATGCTGTGGGCATAGTCATCGCTCACGGTGATACTAACAGCGGAGGTGTCCGGGGGAAGCCGAGGCGGAAGAGTGTTCAGGTCATCAGACTTTGCCAAGAACTTTGTGCAAACAGATCTCCCCTTTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-182-5p(1), mmu-miR-382-5p(1), mmu-miR-207(1), mmu-miR-188-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GTCATCGCTCACGGTGATACTAACAG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSORT1_931_2_ORF_1
0.9728
0.240786808
0.988025446
957
ORF sequence:
ATGATGTACAGCCCTCAGAATTCTGATTACCTGTTAGCTCTCAGCACCGAAAATGGCCTGTGGGTGTCCAAGAATTTTGGGGAAAAATGGGAAGAAATCCACAAAGCAGTATGTTTGGCCAAATGGGGACCAAACAACATCATCTTCTTTACCACCCATGTGAATGGCTCCTGCAAAGCTGATCTTGGTGCCCTGGAATTATGGAGAACATCCGACTTGGGAAAAACCTTCAAAACCATTGGTGTGAAAATCTACTCCTTTGGTCTTGGGGGCCGTTTCCTTTTTGCCTCTGTGATGGCTGATAAGGACACAACAAGAAGGATCCATGTGTCAACAGACCAGGGGGACACATGGAGCATGGCACAACTTCCTTCTGTGGGACAGGAACAGTTCTACTCCATCCTGGCAGCCAATGAGGACATGGTCTTCATGCATGTAGATGAACCTGGAGATACCGGGTTTGGCACCATCTTTACCTCTGATGATCGAGGCATTGTCTACTCCAAGTCTCTGGACAGACATCTCTATACCACCACAGGCGGGGAGACGGACTTTACCAACGTGACTTCCCTCCGTGGGGTCTATATAACAAGCACGCTCTCAGAAGATAACTCTATTCAGAGCATGATCACTTTTGACCAGGGAGGACGGTGGGAGCACCTGCGGAAGCCGGAGAACAGCAAGTGCGACGCTACCGCAAAGAACAAGAACGAGTGCAGCCTTCATATCCATGCTTCTTATAGCATCTCCCAGAAGCTAAACGTTCCAATGGCCCCACTTTCCGAGCCCAATGCTGTGGGCATAGTCATCGCTCACGGTGATACTAACAGCGGAGGTGTCCGGGGGAAGCCGAGGCGGAAGAGTGTTCAGGTCATCAGACTTTGCCAAGAACTTTGTGCAAACAGATCTCCCCTTTCATCCTCTGACGCAGATGATGTACAGCCCTCAGAATTCTGA
Peptide sequence:
MMYSPQNSDYLLALSTENGLWVSKNFGEKWEEIHKAVCLAKWGPNNIIFFTTHVNGSCKADLGALELWRTSDLGKTFKTIGVKIYSFGLGGRFLFASVMADKDTTRRIHVSTDQGDTWSMAQLPSVGQEQFYSILAANEDMVFMHVDEPGDTGFGTIFTSDDRGIVYSKSLDRHLYTTTGGETDFTNVTSLRGVYITSTLSEDNSIQSMITFDQGGRWEHLRKPENSKCDATAKNKNECSLHIHASYSISQKLNVPMAPLSEPNAVGIVIAHGDTNSGGVRGKPRRKSVQVIRLCQELCANRSPLSSSDADDVQPSEF
IRESfinder result
IRESfinder score
0.552976976
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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