top of page
mmu_circGigyf2_2018
Basic information of circular RNA
PanCircBase ID:
mmu_circGigyf2_2018
mm39_Chr. Position ID:
chr1|87344539|87371548|+
Gene name:
Gigyf2
Transcript:
ENSMUST00000027475.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
13
Exon/intron indexes:
15,16,17,18,19,20,21,22,23,24,25,26,27
Exon/intron offsets:
0,2270,3467,4673,6363,8247,11752,16862,19951,23570,23899,25193,26827
Genomic length:
27009
Exon/intron sizes in nt:
1,67,92,10,81,01,10,11,00,00,00,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr1:87339589-87344539|chr1:87371548-87374033
Splice length:
2018
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTCCCTTTAACAATCAGGAGATGGCCGAGTGGTTTCAGGCGGGCTATTTTACTATGTCTTTGCTGGTGAAGAGAGCATGTGATGAAAGCTTCCAGCCCCTTGGTGATATCATGAAAATGTGGGGAAGGGTTCCTTTCTCTCCAGGCCCAGCTCCCCCTCCTCATATGGGAGAATTGGACCAGGAACGCCTGACCAGACAGCAGGAACTCACTGCCTTATACCAGATGCAGCACCTCCAGTACCAGCAGTTCTTAATCCAACAACAGTATGCACAGGTTTTGGCTCAACAGCAGAAAGCAGCTTTGTCATCTCAGCAGCAACAACAATTGGCTCTTCTTCTGCAGCAGTTCCAGGCTCTGAAGATGAGAATGTCTGATCAGAACATCATTCCCTCAGTAACTAGGTCTGTGTCAGTGCCAGATACTGGCTCTATCTGGGAGCTTCAGCCAGCAGCCTCACAGCCTGCAGTTTGGGAAGGTGGTAGTGTATGGGATCTTCCCCTGGACACCACAGCACCAGGTCCTTCCCTGGAACAGCTTCAGCAGCTAGAGAAGGCCAAAGCTGCAAAGTTAGAACAGGAGAGAAGAGAGGCAGAAATGAGGGCAAAAAGGGAAGAGGAGGAGCGAAAGAGGCAAGAAGAACTCCGAAGACAACAGGAGGAAATCCTTCGGAGGCAGCAGGAGGAAGAAAGGAAAAGACGGGAAGAAGAGGAACTTGCTCGAAGGAAGCAGGAGGAGGCTCTGCGGCGCCAACGGGAGCAAGAGATTGCGCTAAGGCGGCAGCGAGAAGAGGAGGAAAGACAGCAGCAGGAAGAAGCTCTTAGACGATTGGAGGAGCGGAGGAGAGAAGAGGAGGAAAGGCGGAAGCAGGAAGAACTGCTGCGCAAGCAGGAAGAGGAGGCTGCCAAATGGGCCCGGGAAGAGGAAGAAGCCCAGCGCCGACTGGAAGAGAACCGGCTGCGCATGGAGGAGGAGGCTGCCAGACTTCGGCATGAAGAAGAAGAAAGAAAACGGAAGGAATTGGAGCTGCAGAGGCAGAAGGATCTGATGCGTCAGAGACAGCAGCAGCAAGAGGCTCTCCGAAGGCTGCAGCAGCAACAGCAGCAGCAACAGCTTGCACAAATGAAGCTTCCCTCTTCGTCAACGTGGGGTCAGCAGTCTAACACAGCAACATGTCAGTCCCAGGCCACGCTGTCATTGGCTGAGATCCAGAAGCTGGAAGAAGAACGAGAACGCCAGCTTCGTGAAGAGCAAAGACGTCAGCAGAGGGAATTGATGAAAGCTCTCCAGCAGCAGCAGCAGCAGCAGCAACAACAAAAACTCTCAGGTTGGGGGAATGTCAGCAAACCTGCAGGTACCACCAAGTCTCTACTAGAGATCCAGCAGGAAGAGGCCAGGCAGATGCAGAAGCAGCAGCAGCAGCAACAACAACAACAACAGCAACACCAGCAATCAAACAGAGCCCGGAACAGCACACATTCCAACCTGCATACCAGCCTTGGGAATTCTGTATGGGGCTCTATAAACACAGGTCCTTCTAACCAGTGGGCGTCTGAGCTAGTCAGTAGTATCTGGAGTAATGCAGACACCAAAAACTCCAACATGGGGTTTTGGGATGATGCAGTGAAAGAGGTGGGACCTAGAAATTCAACAAATAAAAATAAAAACAACGCCAGTCTCAGTAAATCTGTAGGTGTGTCTAACCGGCAGAATAAGAAAGTAGAAGAAGAAGAAAAGTTGCTGAAGCTCTTTCAGGGAGTAAATAAAGCCCAAGATGGATTTACCCAGTGGTGTGAACAGATGCTTCATGCCCTTAATACGGCAAATAACTTGGATGTTCCCACGTTTGTTTCTTTCTTGAAAGAAGTGGAGTCTCCTTATGAAGTCCATGACTATACCAGGGCCTATTTAGGAGATACTTCCGAGGCCAAGGAGTTTGCCAAGCAGTTCCTTGAACGCCGTGCCAAACAGAAAGTCAACCAGCAGCGTCAGCAGCAGCAGCAGCAGCAGCAGCAGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTCCGAGGCCAAGGAGTTTG
60.25
AAATAGCCCGCCTGAAACCA
59.96
149
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCAAGGAGTTTGCCAAGCAG
59.68
AAATAGCCCGCCTGAAACCA
59.96
141
PCR template sequence:
TTCCGAGGCCAAGGAGTTTGCCAAGCAGTTCCTTGAACGCCGTGCCAAACAGAAAGTCAACCAGCAGCGTCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGGTCCCTTTAACAATCAGGAGATGGCCGAGTGGTTTCAGGCGGGCTATTTTACTATGTCTTTGCTGGTGAAGAGAGCATGTGATGAAAGCTTCCAGCCCCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
14
Interacting miRNAs (#binding sites)
mmu-miR-127-5p(2), mmu-miR-9-5p(1), mmu-miR-34c-5p(1), mmu-miR-34a-5p(1), mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-217-5p(1), mmu-miR-138-5p(1), mmu-miR-185-5p(1), mmu-miR-495-3p(1), mmu-miR-136-5p(1), mmu-miR-34b-5p(1), mmu-miR-335-3p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
GCAGCAGCAGCAGGTCCCTTTAACAA
siRNA sets
TTAAAGGGACCTGCTGCTG, TAAAGGGACCTGCTGCTGC, AAAGGGACCTGCTGCTGCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCGIGYF2_2018_ORF_1
1.0431
0.288685265
0.999996945
2067
ORF sequence:
ATGGCCGAGTGGTTTCAGGCGGGCTATTTTACTATGTCTTTGCTGGTGAAGAGAGCATGTGATGAAAGCTTCCAGCCCCTTGGTGATATCATGAAAATGTGGGGAAGGGTTCCTTTCTCTCCAGGCCCAGCTCCCCCTCCTCATATGGGAGAATTGGACCAGGAACGCCTGACCAGACAGCAGGAACTCACTGCCTTATACCAGATGCAGCACCTCCAGTACCAGCAGTTCTTAATCCAACAACAGTATGCACAGGTTTTGGCTCAACAGCAGAAAGCAGCTTTGTCATCTCAGCAGCAACAACAATTGGCTCTTCTTCTGCAGCAGTTCCAGGCTCTGAAGATGAGAATGTCTGATCAGAACATCATTCCCTCAGTAACTAGGTCTGTGTCAGTGCCAGATACTGGCTCTATCTGGGAGCTTCAGCCAGCAGCCTCACAGCCTGCAGTTTGGGAAGGTGGTAGTGTATGGGATCTTCCCCTGGACACCACAGCACCAGGTCCTTCCCTGGAACAGCTTCAGCAGCTAGAGAAGGCCAAAGCTGCAAAGTTAGAACAGGAGAGAAGAGAGGCAGAAATGAGGGCAAAAAGGGAAGAGGAGGAGCGAAAGAGGCAAGAAGAACTCCGAAGACAACAGGAGGAAATCCTTCGGAGGCAGCAGGAGGAAGAAAGGAAAAGACGGGAAGAAGAGGAACTTGCTCGAAGGAAGCAGGAGGAGGCTCTGCGGCGCCAACGGGAGCAAGAGATTGCGCTAAGGCGGCAGCGAGAAGAGGAGGAAAGACAGCAGCAGGAAGAAGCTCTTAGACGATTGGAGGAGCGGAGGAGAGAAGAGGAGGAAAGGCGGAAGCAGGAAGAACTGCTGCGCAAGCAGGAAGAGGAGGCTGCCAAATGGGCCCGGGAAGAGGAAGAAGCCCAGCGCCGACTGGAAGAGAACCGGCTGCGCATGGAGGAGGAGGCTGCCAGACTTCGGCATGAAGAAGAAGAAAGAAAACGGAAGGAATTGGAGCTGCAGAGGCAGAAGGATCTGATGCGTCAGAGACAGCAGCAGCAAGAGGCTCTCCGAAGGCTGCAGCAGCAACAGCAGCAGCAACAGCTTGCACAAATGAAGCTTCCCTCTTCGTCAACGTGGGGTCAGCAGTCTAACACAGCAACATGTCAGTCCCAGGCCACGCTGTCATTGGCTGAGATCCAGAAGCTGGAAGAAGAACGAGAACGCCAGCTTCGTGAAGAGCAAAGACGTCAGCAGAGGGAATTGATGAAAGCTCTCCAGCAGCAGCAGCAGCAGCAGCAACAACAAAAACTCTCAGGTTGGGGGAATGTCAGCAAACCTGCAGGTACCACCAAGTCTCTACTAGAGATCCAGCAGGAAGAGGCCAGGCAGATGCAGAAGCAGCAGCAGCAGCAACAACAACAACAACAGCAACACCAGCAATCAAACAGAGCCCGGAACAGCACACATTCCAACCTGCATACCAGCCTTGGGAATTCTGTATGGGGCTCTATAAACACAGGTCCTTCTAACCAGTGGGCGTCTGAGCTAGTCAGTAGTATCTGGAGTAATGCAGACACCAAAAACTCCAACATGGGGTTTTGGGATGATGCAGTGAAAGAGGTGGGACCTAGAAATTCAACAAATAAAAATAAAAACAACGCCAGTCTCAGTAAATCTGTAGGTGTGTCTAACCGGCAGAATAAGAAAGTAGAAGAAGAAGAAAAGTTGCTGAAGCTCTTTCAGGGAGTAAATAAAGCCCAAGATGGATTTACCCAGTGGTGTGAACAGATGCTTCATGCCCTTAATACGGCAAATAACTTGGATGTTCCCACGTTTGTTTCTTTCTTGAAAGAAGTGGAGTCTCCTTATGAAGTCCATGACTATACCAGGGCCTATTTAGGAGATACTTCCGAGGCCAAGGAGTTTGCCAAGCAGTTCCTTGAACGCCGTGCCAAACAGAAAGTCAACCAGCAGCGTCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGGTCCCTTTAACAATCAGGAGATGGCCGAGTGGTTTCAGGCGGGCTATTTTACTATGTCTTTGCTGGTGA
Peptide sequence:
MAEWFQAGYFTMSLLVKRACDESFQPLGDIMKMWGRVPFSPGPAPPPHMGELDQERLTRQQELTALYQMQHLQYQQFLIQQQYAQVLAQQQKAALSSQQQQQLALLLQQFQALKMRMSDQNIIPSVTRSVSVPDTGSIWELQPAASQPAVWEGGSVWDLPLDTTAPGPSLEQLQQLEKAKAAKLEQERREAEMRAKREEEERKRQEELRRQQEEILRRQQEEERKRREEEELARRKQEEALRRQREQEIALRRQREEEERQQQEEALRRLEERRREEEERRKQEELLRKQEEEAAKWAREEEEAQRRLEENRLRMEEEAARLRHEEEERKRKELELQRQKDLMRQRQQQQEALRRLQQQQQQQQLAQMKLPSSSTWGQQSNTATCQSQATLSLAEIQKLEEERERQLREEQRRQQRELMKALQQQQQQQQQQKLSGWGNVSKPAGTTKSLLEIQQEEARQMQKQQQQQQQQQQQHQQSNRARNSTHSNLHTSLGNSVWGSINTGPSNQWASELVSSIWSNADTKNSNMGFWDDAVKEVGPRNSTNKNKNNASLSKSVGVSNRQNKKVEEEEKLLKLFQGVNKAQDGFTQWCEQMLHALNTANNLDVPTFVSFLKEVESPYEVHDYTRAYLGDTSEAKEFAKQFLERRAKQKVNQQRQQQQQQQQQQVPLTIRRWPSGFRRAILLCLCW
IRESfinder result
IRESfinder score
0.381041423
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page