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mmu_circGigyf2_926
Basic information of circular RNA
PanCircBase ID:
mmu_circGigyf2_926
mm39_Chr. Position ID:
chr1|87338383|87351003|+
Gene name:
Gigyf2
Transcript:
ENSMUST00000027475.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
13,14,15,16,17,18,19
Exon/intron offsets:
0,1046,6156,8426,9623,10829,12519
Genomic length:
12620
Exon/intron sizes in nt:
1,97,16,01,67,92,10,81,00,000
Flanking exon/introns:
chr1:87335445-87338383|chr1:87351003-87352786
Splice length:
926
Other database IDs:
circAtlas: mmu-Gigyf2_0042
Human Ortholog IDs:
Mature spliced Sequence:
AAACGGTGCCTGCCTCCCAGCAACCCTCCACACCGCTTCCTCCAGACACAGCCTCTCCTCTCCTCATCCTGTCGCCTCCTGTTCCTACTCCTAGTTCTGCCTCTCGGCCAGTTGAGACAGCAGCCGTCGAAGCTCCTGGTATGAGCAGTGTTTCCACAGAGCCAGATGATGAAGAGGGCCTCAAACACTTGGAACAGCAAGCTGAGAAGATGGTGGCTTATCTCCAAGACAGTGCACTAGACGACGAAAGATTGACATCAAAACTGCAAGAGCACCGAGCTAAAGGAGTGTCAATCCCACTGATGCATGAAGCAATGCAGAAGTGGTATTACAAAGACCCTCAGGGGGAGATTCAAGGTCCCTTTAACAATCAGGAGATGGCCGAGTGGTTTCAGGCGGGCTATTTTACTATGTCTTTGCTGGTGAAGAGAGCATGTGATGAAAGCTTCCAGCCCCTTGGTGATATCATGAAAATGTGGGGAAGGGTTCCTTTCTCTCCAGGCCCAGCTCCCCCTCCTCATATGGGAGAATTGGACCAGGAACGCCTGACCAGACAGCAGGAACTCACTGCCTTATACCAGATGCAGCACCTCCAGTACCAGCAGTTCTTAATCCAACAACAGTATGCACAGGTTTTGGCTCAACAGCAGAAAGCAGCTTTGTCATCTCAGCAGCAACAACAATTGGCTCTTCTTCTGCAGCAGTTCCAGGCTCTGAAGATGAGAATGTCTGATCAGAACATCATTCCCTCAGTAACTAGGTCTGTGTCAGTGCCAGATACTGGCTCTATCTGGGAGCTTCAGCCAGCAGCCTCACAGCCTGCAGTTTGGGAAGGTGGTAGTGTATGGGATCTTCCCCTGGACACCACAGCACCAGGTCCTTCCCTGGAACAGCTTCAGCAGCTAGAGAAGGCCAAAGCTGCAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GATCTTCCCCTGGACACCAC
59.75
GTAGGAACAGGAGGCGACAG
59.83
166
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GATCTTCCCCTGGACACCAC
59.75
GGATGAGGAGAGGAGAGGCT
59.81
147
PCR template sequence:
TTGGGAAGGTGGTAGTGTATGGGATCTTCCCCTGGACACCACAGCACCAGGTCCTTCCCTGGAACAGCTTCAGCAGCTAGAGAAGGCCAAAGCTGCAAAGAAACGGTGCCTGCCTCCCAGCAACCCTCCACACCGCTTCCTCCAGACACAGCCTCTCCTCTCCTCATCCTGTCGCCTCCTGTTCCTACTCCTAGTTCTGC
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-200a-3p(1), mmu-miR-34c-5p(1), mmu-miR-34a-5p(1), mmu-miR-33-5p(1), mmu-miR-709(1), mmu-miR-185-5p(1), mmu-miR-149-5p(1), mmu-miR-351-5p(1), mmu-miR-125a-5p(1), mmu-miR-34b-5p(1), mmu-miR-335-3p(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CAAAGCTGCAAAGAAACGGTGCCTGC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCGIGYF2_926_ORF_1
1.1092
0.182123594
0.99179696
1008
ORF sequence:
ATGGGATCTTCCCCTGGACACCACAGCACCAGGTCCTTCCCTGGAACAGCTTCAGCAGCTAGAGAAGGCCAAAGCTGCAAAGAAACGGTGCCTGCCTCCCAGCAACCCTCCACACCGCTTCCTCCAGACACAGCCTCTCCTCTCCTCATCCTGTCGCCTCCTGTTCCTACTCCTAGTTCTGCCTCTCGGCCAGTTGAGACAGCAGCCGTCGAAGCTCCTGGTATGAGCAGTGTTTCCACAGAGCCAGATGATGAAGAGGGCCTCAAACACTTGGAACAGCAAGCTGAGAAGATGGTGGCTTATCTCCAAGACAGTGCACTAGACGACGAAAGATTGACATCAAAACTGCAAGAGCACCGAGCTAAAGGAGTGTCAATCCCACTGATGCATGAAGCAATGCAGAAGTGGTATTACAAAGACCCTCAGGGGGAGATTCAAGGTCCCTTTAACAATCAGGAGATGGCCGAGTGGTTTCAGGCGGGCTATTTTACTATGTCTTTGCTGGTGAAGAGAGCATGTGATGAAAGCTTCCAGCCCCTTGGTGATATCATGAAAATGTGGGGAAGGGTTCCTTTCTCTCCAGGCCCAGCTCCCCCTCCTCATATGGGAGAATTGGACCAGGAACGCCTGACCAGACAGCAGGAACTCACTGCCTTATACCAGATGCAGCACCTCCAGTACCAGCAGTTCTTAATCCAACAACAGTATGCACAGGTTTTGGCTCAACAGCAGAAAGCAGCTTTGTCATCTCAGCAGCAACAACAATTGGCTCTTCTTCTGCAGCAGTTCCAGGCTCTGAAGATGAGAATGTCTGATCAGAACATCATTCCCTCAGTAACTAGGTCTGTGTCAGTGCCAGATACTGGCTCTATCTGGGAGCTTCAGCCAGCAGCCTCACAGCCTGCAGTTTGGGAAGGTGGTAGTGTATGGGATCTTCCCCTGGACACCACAGCACCAGGTCCTTCCCTGGAACAGCTTCAGCAGCTAGAGAAGGCCAAAGCTGCAAAG
Peptide sequence:
MGSSPGHHSTRSFPGTASAAREGQSCKETVPASQQPSTPLPPDTASPLLILSPPVPTPSSASRPVETAAVEAPGMSSVSTEPDDEEGLKHLEQQAEKMVAYLQDSALDDERLTSKLQEHRAKGVSIPLMHEAMQKWYYKDPQGEIQGPFNNQEMAEWFQAGYFTMSLLVKRACDESFQPLGDIMKMWGRVPFSPGPAPPPHMGELDQERLTRQQELTALYQMQHLQYQQFLIQQQYAQVLAQQQKAALSSQQQQQLALLLQQFQALKMRMSDQNIIPSVTRSVSVPDTGSIWELQPAASQPAVWEGGSVWDLPLDTTAPGPSLEQLQQLEKAKAAK
IRESfinder result
IRESfinder score
0.573370945
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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