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mmu_circXpo1_2084
Basic information of circular RNA
PanCircBase ID:
mmu_circXpo1_2084
mm39_Chr. Position ID:
chr11|23231305|23244148|+
Gene name:
Xpo1
Transcript:
ENSMUST00000020538.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
13
Exon/intron indexes:
12,13,14,15,16,17,18,19,20,21,22,23,24
Exon/intron offsets:
0,1223,2936,3242,3506,3750,4495,5439,6039,8452,10157,12466,12683
Genomic length:
12843
Exon/intron sizes in nt:
15,91,98,13,91,82,15,70,00,00,00,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr11:23230502-23231305|chr11:23244148-23244595
Splice length:
2084
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
ATGCTTCCTTTAAACACTAATATCCGACTTGCATACTCGAATGGGAAAGATGATGAACAGAACTTTATTCAAAATCTCAGCCTGTTTCTCTGTACCTTTCTAAAAGAGCACGGTCAACTTCTAGAAAAACGACTGAATCTCAGGGAAGCACTCATGGAGGCTCTTCATTATATGTTGTTGGTGTCTGAAGTGGAAGAAACTGAAATTTTTAAAATCTGCCTTGAGTACTGGAATCATTTGGCAGCTGAGCTCTACAGAGAGAGTCCATTTTCTACATCTGCTTCTCCCTTGTTATCTGGAAGTCAACACTTTGATATTCCTCCTAGGAGACAGCTGTACTTGACCGTGTTATCAAAGGTCCGTTTATTGATGGTTAGTCGCATGGCTAAACCAGAGGAGGTACTGGTTGTAGAAAATGATCAGGGAGAAGTTGTAAGAGAGTTCATGAAGGATACTGATTCCATAAATTTATATAAGAATATGAGAGAAACATTAGTTTATCTTACTCATCTGGATTATGTAGATACGGAAATAATAATGACTAAGAAACTTCAAAATCAAGTGAATGGTACAGAATGGTCATGGAAGAATTTGAATACGTTGTGTTGGGCAATAGGCTCCATCAGTGGCGCAATGCATGAAGAGGATGAGAAGCGGTTTCTTGTTACTGTTATAAAGGATCTTTTAGGATTATGTGAGCAGAAAAGAGGCAAAGATAATAAAGCTATTATTGCATCGAATATCATGTACATAGTAGGTCAATACCCAAGATTTTTGAGAGCACACTGGAAATTTTTGAAGACAGTAGTAAACAAGCTATTCGAATTCATGCATGAGACCCATGATGGAGTCCAGGATATGGCTTGTGACACATTTATTAAAATAGCTCAAAAATGCCGTAGGCATTTTGTTCAGGTTCAAGTTGGAGAAGTAATGCCGTTCATTGATGAGATTTTAAACAACATAAATACTATAATTTGTGATCTTCAGCCTCAGCAGGTTCATACATTTTATGAAGCTGTGGGGTACATGATTGGTGCACAGACAGACCAGACAGTTCAAGAGCATTTGATAGAAAAATACATGCTACTCCCTAATCAAGTGTGGGACAGTATAATTCAGCAGGCTACCAAAAATGTGGATATCCTGAAAGATCCTGAAACAGTCAAGCAGCTGGGTAGCATATTAAAAACAAATGTGAGAGCCTGCAAAGCTGTTGGTCATCCCTTTGTAATTCAGCTTGGCAGAATTTATTTAGACATGCTTAATGTATATAAGTGCCTCAGTGAAAATATTTCTGCAGCTATTCAAGCTAATGGTGAGATGGTTACAAAGCAACCATTGATTAGAAGTATGCGGACAGTAAAAAGGGAAACTTTAAAGTTAATATCTGGTTGGGTGAGCCGTTCCAATGATCCTCAGATGGTAGCTGAAAACTTTGTTCCTCCTTTGTTGGATGCAGTTCTTATTGATTACCAGAGAAATGTACCAGCTGCTAGAGAACCAGAAGTGCTTAGTACTATGGCCATTATTGTCAACAAATTAGGTGGACATATAACAGCTGAAATACCTCAAATATTCGATGCAGTTTTTGAGTGCACATTGAATATGATAAATAAGGATTTTGAAGAGTATCCAGAACACAGAACAAACTTTTTCTTATTACTTCAAGCTGTCAATTCTCACTGTTTCCCAGCATTCCTAGCTATTCCACCTGCACAGTTCAAGCTGGTTTTGGATTCTATTATTTGGGCTTTTAAACATACTATGAGGAATGTTGCAGATACAGGCTTACAGATACTTTTTACACTTTTACAAAATGTTGCACAAGAGGAAGCTGCCGCACAGAGTTTTTATCAAACTTATTTTTGTGATATTCTTCAGCATATTTTCTCTGTTGTAACAGACACTTCACATACTGCAGGTCTAACAATGCATGCATCAATTCTTGCATATATGTTTAATTTGGTTGAAGAAGGAAAAATAAGTACACCACTAAATCCTGGAAATCCAGTTAACAACCAAATGTTTATTCAAGACTATGTGGCTAATCTCCTTAAATCTGCATTCCCTCATCTACAAGA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACACCACTAAATCCTGGAAATCCA
59.96
TCCCATTCGAGTATGCAAGTC
57.82
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACACCACTAAATCCTGGAAATCCA
59.96
TCCCATTCGAGTATGCAAGT
56.63
141
PCR template sequence:
TAAGTACACCACTAAATCCTGGAAATCCAGTTAACAACCAAATGTTTATTCAAGACTATGTGGCTAATCTCCTTAAATCTGCATTCCCTCATCTACAAGAATGCTTCCTTTAAACACTAATATCCGACTTGCATACTCGAATGGGAAAGATGATGAACAGAACTTTATTCAAAATCTCAGCCTGTTTCTCTGTACCTTTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
16
Interacting miRNAs (#binding sites)
mmu-miR-217-5p(2), mmu-miR-22-3p(2), mmu-miR-9-5p(1), mmu-miR-135a-5p(1), mmu-miR-211-5p(1), mmu-miR-33-5p(1), mmu-miR-216a-5p(1), mmu-miR-320-3p(1), mmu-miR-370-3p(1), mmu-miR-215-5p(1), mmu-miR-301a-3p(1), mmu-miR-802-5p(1), mmu-miR-207(1), mmu-miR-335-3p(1), mmu-miR-670-5p(1), mmu-miR-146b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTCATCTACAAGAATGCTTCCTTTAA
siRNA sets
TTAAAGGAAGCATTCTTGT, AAAGGAAGCATTCTTGTAG, AAGGAAGCATTCTTGTAGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCXPO1_2084_ORF_1
1.0197
-0.079867032
0.99998837
2097
ORF sequence:
ATGCTTCCTTTAAACACTAATATCCGACTTGCATACTCGAATGGGAAAGATGATGAACAGAACTTTATTCAAAATCTCAGCCTGTTTCTCTGTACCTTTCTAAAAGAGCACGGTCAACTTCTAGAAAAACGACTGAATCTCAGGGAAGCACTCATGGAGGCTCTTCATTATATGTTGTTGGTGTCTGAAGTGGAAGAAACTGAAATTTTTAAAATCTGCCTTGAGTACTGGAATCATTTGGCAGCTGAGCTCTACAGAGAGAGTCCATTTTCTACATCTGCTTCTCCCTTGTTATCTGGAAGTCAACACTTTGATATTCCTCCTAGGAGACAGCTGTACTTGACCGTGTTATCAAAGGTCCGTTTATTGATGGTTAGTCGCATGGCTAAACCAGAGGAGGTACTGGTTGTAGAAAATGATCAGGGAGAAGTTGTAAGAGAGTTCATGAAGGATACTGATTCCATAAATTTATATAAGAATATGAGAGAAACATTAGTTTATCTTACTCATCTGGATTATGTAGATACGGAAATAATAATGACTAAGAAACTTCAAAATCAAGTGAATGGTACAGAATGGTCATGGAAGAATTTGAATACGTTGTGTTGGGCAATAGGCTCCATCAGTGGCGCAATGCATGAAGAGGATGAGAAGCGGTTTCTTGTTACTGTTATAAAGGATCTTTTAGGATTATGTGAGCAGAAAAGAGGCAAAGATAATAAAGCTATTATTGCATCGAATATCATGTACATAGTAGGTCAATACCCAAGATTTTTGAGAGCACACTGGAAATTTTTGAAGACAGTAGTAAACAAGCTATTCGAATTCATGCATGAGACCCATGATGGAGTCCAGGATATGGCTTGTGACACATTTATTAAAATAGCTCAAAAATGCCGTAGGCATTTTGTTCAGGTTCAAGTTGGAGAAGTAATGCCGTTCATTGATGAGATTTTAAACAACATAAATACTATAATTTGTGATCTTCAGCCTCAGCAGGTTCATACATTTTATGAAGCTGTGGGGTACATGATTGGTGCACAGACAGACCAGACAGTTCAAGAGCATTTGATAGAAAAATACATGCTACTCCCTAATCAAGTGTGGGACAGTATAATTCAGCAGGCTACCAAAAATGTGGATATCCTGAAAGATCCTGAAACAGTCAAGCAGCTGGGTAGCATATTAAAAACAAATGTGAGAGCCTGCAAAGCTGTTGGTCATCCCTTTGTAATTCAGCTTGGCAGAATTTATTTAGACATGCTTAATGTATATAAGTGCCTCAGTGAAAATATTTCTGCAGCTATTCAAGCTAATGGTGAGATGGTTACAAAGCAACCATTGATTAGAAGTATGCGGACAGTAAAAAGGGAAACTTTAAAGTTAATATCTGGTTGGGTGAGCCGTTCCAATGATCCTCAGATGGTAGCTGAAAACTTTGTTCCTCCTTTGTTGGATGCAGTTCTTATTGATTACCAGAGAAATGTACCAGCTGCTAGAGAACCAGAAGTGCTTAGTACTATGGCCATTATTGTCAACAAATTAGGTGGACATATAACAGCTGAAATACCTCAAATATTCGATGCAGTTTTTGAGTGCACATTGAATATGATAAATAAGGATTTTGAAGAGTATCCAGAACACAGAACAAACTTTTTCTTATTACTTCAAGCTGTCAATTCTCACTGTTTCCCAGCATTCCTAGCTATTCCACCTGCACAGTTCAAGCTGGTTTTGGATTCTATTATTTGGGCTTTTAAACATACTATGAGGAATGTTGCAGATACAGGCTTACAGATACTTTTTACACTTTTACAAAATGTTGCACAAGAGGAAGCTGCCGCACAGAGTTTTTATCAAACTTATTTTTGTGATATTCTTCAGCATATTTTCTCTGTTGTAACAGACACTTCACATACTGCAGGTCTAACAATGCATGCATCAATTCTTGCATATATGTTTAATTTGGTTGAAGAAGGAAAAATAAGTACACCACTAAATCCTGGAAATCCAGTTAACAACCAAATGTTTATTCAAGACTATGTGGCTAATCTCCTTAAATCTGCATTCCCTCATCTACAAGAATGCTTCCTTTAA
Peptide sequence:
MLPLNTNIRLAYSNGKDDEQNFIQNLSLFLCTFLKEHGQLLEKRLNLREALMEALHYMLLVSEVEETEIFKICLEYWNHLAAELYRESPFSTSASPLLSGSQHFDIPPRRQLYLTVLSKVRLLMVSRMAKPEEVLVVENDQGEVVREFMKDTDSINLYKNMRETLVYLTHLDYVDTEIIMTKKLQNQVNGTEWSWKNLNTLCWAIGSISGAMHEEDEKRFLVTVIKDLLGLCEQKRGKDNKAIIASNIMYIVGQYPRFLRAHWKFLKTVVNKLFEFMHETHDGVQDMACDTFIKIAQKCRRHFVQVQVGEVMPFIDEILNNINTIICDLQPQQVHTFYEAVGYMIGAQTDQTVQEHLIEKYMLLPNQVWDSIIQQATKNVDILKDPETVKQLGSILKTNVRACKAVGHPFVIQLGRIYLDMLNVYKCLSENISAAIQANGEMVTKQPLIRSMRTVKRETLKLISGWVSRSNDPQMVAENFVPPLLDAVLIDYQRNVPAAREPEVLSTMAIIVNKLGGHITAEIPQIFDAVFECTLNMINKDFEEYPEHRTNFFLLLQAVNSHCFPAFLAIPPAQFKLVLDSIIWAFKHTMRNVADTGLQILFTLLQNVAQEEAAAQSFYQTYFCDILQHIFSVVTDTSHTAGLTMHASILAYMFNLVEEGKISTPLNPGNPVNNQMFIQDYVANLLKSAFPHLQECFL
IRESfinder result
IRESfinder score
0.777025246
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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