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mmu_circMap3k2_667
Basic information of circular RNA
PanCircBase ID:
mmu_circMap3k2_667
mm39_Chr. Position ID:
chr18|32336852|32345221|+
Gene name:
Map3k2
Transcript:
ENSMUST00000096575.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
7,8,9,10,11,12
Exon/intron offsets:
0,3608,4842,5929,6144,8162
Genomic length:
8369
Exon/intron sizes in nt:
8,81,31,80,68,93,207
Flanking exon/introns:
chr18:32336192-32336852|chr18:32345221-32350196
Splice length:
667
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GCTACTAATTTAGAACCATCACCGTCACCAGAAGATTTGAATAATACACCACTTGGTGCAGAGAGGAAAAAGCGGCTATCTGTAGTAGGTCCCCCTAATAGGGATAGAAGTTCCCCTCCTCCAGGATACATTCCAGACGAGCTACACCAGATTGCCCGGAATGGGTCATTCACTAGCATCAACAGTGAAGGAGAGTTCATTCCAGAGAGCATGGACCAAATGCTGGATCCATTGTCTTTAAGCAGCCCTGAAAATTCTGGCTCAGGAAGCTGTCCGTCACTTGATAGTCCTTTGGATGGAGAAAGCTACCCAAAATCACGGATGCCTAGGGCACAGAGCTACCCAGATAATCATCAGGAGTTTACAGACTATGATAACCCCATTTTTGAGAAATTTGGAAAAGGAGGAACATATCCAAGAAGGTACCACGTTTCCTATCATCACCAGGAGTATAATGACGGTCGGAAGACTTTTCCAAGAGCTAGAAGGACCCAGGGCACCAGTTTCCGGTCTCCTGTGAGCTTCAGTCCTACTGATCACTCCTTAAGCACTAGTAGTGGAAGCAGTGTCTTTACCCCAGAGTATGACGACAGTCGAATAAGAAGACGGGGGAGTGACATAGACAATCCTACTTTGACTGTCACAGACATCAGCCCACCCAGCCGTT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGAAGACGGGGGAGTGACAT
60.25
CGCTTTTTCCTCTCTGCACC
59.48
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGAAGACGGGGGAGTGACAT
60.25
CCGCTTTTTCCTCTCTGCAC
59.48
142
PCR template sequence:
GTCTTTACCCCAGAGTATGACGACAGTCGAATAAGAAGACGGGGGAGTGACATAGACAATCCTACTTTGACTGTCACAGACATCAGCCCACCCAGCCGTTGCTACTAATTTAGAACCATCACCGTCACCAGAAGATTTGAATAATACACCACTTGGTGCAGAGAGGAAAAAGCGGCTATCTGTAGTAGGTCCCCCTAATA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-127-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CCACCCAGCCGTTGCTACTAATTTAG
siRNA sets
CTAAATTAGTAGCAACGGC, AATTAGTAGCAACGGCTGG, TTAGTAGCAACGGCTGGGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMAP3K2_667_ORF_1
0.9752
0.098017209
0.573360392
465
ORF sequence:
ATGGACCAAATGCTGGATCCATTGTCTTTAAGCAGCCCTGAAAATTCTGGCTCAGGAAGCTGTCCGTCACTTGATAGTCCTTTGGATGGAGAAAGCTACCCAAAATCACGGATGCCTAGGGCACAGAGCTACCCAGATAATCATCAGGAGTTTACAGACTATGATAACCCCATTTTTGAGAAATTTGGAAAAGGAGGAACATATCCAAGAAGGTACCACGTTTCCTATCATCACCAGGAGTATAATGACGGTCGGAAGACTTTTCCAAGAGCTAGAAGGACCCAGGGCACCAGTTTCCGGTCTCCTGTGAGCTTCAGTCCTACTGATCACTCCTTAAGCACTAGTAGTGGAAGCAGTGTCTTTACCCCAGAGTATGACGACAGTCGAATAAGAAGACGGGGGAGTGACATAGACAATCCTACTTTGACTGTCACAGACATCAGCCCACCCAGCCGTTGCTACTAA
Peptide sequence:
MDQMLDPLSLSSPENSGSGSCPSLDSPLDGESYPKSRMPRAQSYPDNHQEFTDYDNPIFEKFGKGGTYPRRYHVSYHHQEYNDGRKTFPRARRTQGTSFRSPVSFSPTDHSLSTSSGSSVFTPEYDDSRIRRRGSDIDNPTLTVTDISPPSRCY
IRESfinder result
IRESfinder score
0.672872573
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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