top of page
mmu_circGps2_520
Basic information of circular RNA
PanCircBase ID:
mmu_circGps2_520
mm39_Chr. Position ID:
chr11|69805758|69806780|+
Gene name:
Gps2
Transcript:
ENSMUST00000072581.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
4,5,6,7,8
Exon/intron offsets:
0,206,375,698,932
Genomic length:
1022
Exon/intron sizes in nt:
113,80,83,154,90
Flanking exon/introns:
chr11:69805687-69805758|chr11:69806780-69806858
Splice length:
520
Other database IDs:
CIRCpedia: MMU_CIRCpedia_27307, circAtlas: mmu-Gps2_0001
Human Ortholog IDs:
Mature spliced Sequence:
ATCCTGAAGCTGCAGGAGAAGCTTTCTGCTCTACAGGAGGAGAAGCACCAGCTTTTCTTGCAGCTCAAGAAAGTTTTGCATGAGGAAGAAAAACGGAGGCGAAAGGAACAGAGTGACTTAACCACTCTGACATCAGCTGCATACCAGCAGAGCCTGACGGTTCATACAGGAACCCACCTCCTCAGCATGCAGGGGAGCCCTGGAGGACACAATCGCCCAGGTACTCTGATGGCAGCTGACAGAGCCAAGCAGATGTTTGGACCACAAGTGCTTACGACCCGGCACTACGTGGGATCAGCAGCTGCTTTTGCAGGAACCCCAGAACATGGACAATTCCAAGGCAGTCCAGGGGGTGCTTATGGGACTGCTCAGCCCCCACCTCATTATGGGCCAACACAACCAGCCTATAGTCCTAGCCAGCAGCTCAGAGCCCCATCAGCATTTCCTGCAGTGCAGTACCTATCTCAGCCACAGCCACAACCCTATGCAGTGCATGGCCACTTTCAGCCCACTCAGACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GAGCCCCATCAGCATTTCCT
60.11
CTGCAAGAAAAGCTGGTGCT
59.33
156
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGAGCCCCATCAGCATTTCC
60.11
CTGCAAGAAAAGCTGGTGCT
59.33
157
PCR template sequence:
CAGCTCAGAGCCCCATCAGCATTTCCTGCAGTGCAGTACCTATCTCAGCCACAGCCACAACCCTATGCAGTGCATGGCCACTTTCAGCCCACTCAGACAGATCCTGAAGCTGCAGGAGAAGCTTTCTGCTCTACAGGAGGAGAAGCACCAGCTTTTCTTGCAGCTCAAGAAAGTTTTGCATGAGGAAGAAAAACGGAGGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-217-5p(2), mmu-miR-324-5p(1), mmu-miR-22-3p(1), mmu-miR-224-5p(1), mmu-miR-207(1), mmu-miR-3061-5p(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CCCACTCAGACAGATCCTGAAGCTGC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCGPS2_520_ORF_1
1.0389
0.210257218
0.935635864
714
ORF sequence:
ATGGACAATTCCAAGGCAGTCCAGGGGGTGCTTATGGGACTGCTCAGCCCCCACCTCATTATGGGCCAACACAACCAGCCTATAGTCCTAGCCAGCAGCTCAGAGCCCCATCAGCATTTCCTGCAGTGCAGTACCTATCTCAGCCACAGCCACAACCCTATGCAGTGCATGGCCACTTTCAGCCCACTCAGACAGATCCTGAAGCTGCAGGAGAAGCTTTCTGCTCTACAGGAGGAGAAGCACCAGCTTTTCTTGCAGCTCAAGAAAGTTTTGCATGAGGAAGAAAAACGGAGGCGAAAGGAACAGAGTGACTTAACCACTCTGACATCAGCTGCATACCAGCAGAGCCTGACGGTTCATACAGGAACCCACCTCCTCAGCATGCAGGGGAGCCCTGGAGGACACAATCGCCCAGGTACTCTGATGGCAGCTGACAGAGCCAAGCAGATGTTTGGACCACAAGTGCTTACGACCCGGCACTACGTGGGATCAGCAGCTGCTTTTGCAGGAACCCCAGAACATGGACAATTCCAAGGCAGTCCAGGGGGTGCTTATGGGACTGCTCAGCCCCCACCTCATTATGGGCCAACACAACCAGCCTATAGTCCTAGCCAGCAGCTCAGAGCCCCATCAGCATTTCCTGCAGTGCAGTACCTATCTCAGCCACAGCCACAACCCTATGCAGTGCATGGCCACTTTCAGCCCACTCAGACA
Peptide sequence:
MDNSKAVQGVLMGLLSPHLIMGQHNQPIVLASSSEPHQHFLQCSTYLSHSHNPMQCMATFSPLRQILKLQEKLSALQEEKHQLFLQLKKVLHEEEKRRRKEQSDLTTLTSAAYQQSLTVHTGTHLLSMQGSPGGHNRPGTLMAADRAKQMFGPQVLTTRHYVGSAAAFAGTPEHGQFQGSPGGAYGTAQPPPHYGPTQPAYSPSQQLRAPSAFPAVQYLSQPQPQPYAVHGHFQPTQT
IRESfinder result
IRESfinder score
0.478233257
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page