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mmu_circArmc2_848
Basic information of circular RNA
PanCircBase ID:
mmu_circArmc2_848
mm39_Chr. Position ID:
chr10|41823891|41851453|-
Gene name:
Armc2
Transcript:
ENSMUST00000160262.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
12,11,10,9,8,7
Exon/intron offsets:
0,3705,15743,18805,23129,27463
Genomic length:
27562
Exon/intron sizes in nt:
100,146,224,103,176,99
Flanking exon/introns:
chr10:41803096-41823891|chr10:41851453-41856516
Splice length:
848
Other database IDs:
circBase: mmu_circ_0002203, CIRCpedia: MMU_CIRCpedia_19759, circAtlas: mmu-Armc2_0005
circAtlas: hsa-ARMC2_0054, CIRCpedia: HSA_CIRCpedia_135956
Human Ortholog IDs:
Mature spliced Sequence:
CCTCCAGAGCTAGCTCACAGGAACAGGAGACAGACACAGAAGTAGATGAAGTCTTCTGGAAAGCACGGATTGTTCCCATTTTGCATGAATTAGAAAACGAAGAAGACATTGAAGAGATGTGTGCAGCCTGCACCCAGCTCCATCGCACGCTGGAGGAAGCGCGCATGCTCGGAAAGAAGTTCAAGCGAAGAACTGTCCTGCTGAAGGCTCTGTATAAGCTAGTGGATGCTGACTCGGACCCGCTCAGCCTGAAGCTTGCCAAACTTATCCTAGCACTTAAAGTGAGTGGAAAGAACCTTCTTAACGTCTGCAAACTGATATTTAAAATCAGCAGGAACGAGAAGAACGACACCCTGATGCAGGAGGATAACATCCTGGAATCATTACTGGAGGTACTGAGAGCTGAAGAGCTGCAAAGTAACACCGAGGCTTTTCTCTACTGCATGGGGGCTCTGAAATTCGTTTCCGGAAGCCCGGGGTTTCTTACTGAGATGGTCAACAAGGGTGCAGTGGAAATATTGGCACAGCTGATAAAGGAAATGACGGAGGACACGGAGAAGCACGGCGTCTGCCTGCCTGATTCTGGCCATTTGCTAGTGCAGACAACCGCGACCTTGAGAAACTTAGTCGATTCACCACTGACGAGAAGCAAGCTCCTGAACATGGGGGCCTTTCCCCATCTCTGCACAGTGATGGAACAGCATGCAGACGACAAGGACATCTGTACCAACATCGCCAGAATCTTTAGCAAACTAACCTCTTACCGCGACTGCTGTGCAGCCCTGGCCAGCTATTCCAGGTGTTACGCCTTGTTTCTGAGTCTATTGAACAAATACCAGAAGAACCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TAACCTCTTACCGCGACTGC
59.83
TCCGTGCTTTCCAGAAGACT
58.95
164
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TAACCTCTTACCGCGACTGC
59.83
GGAACAATCCGTGCTTTCCAG
59.8
171
PCR template sequence:
CAAACTAACCTCTTACCGCGACTGCTGTGCAGCCCTGGCCAGCTATTCCAGGTGTTACGCCTTGTTTCTGAGTCTATTGAACAAATACCAGAAGAACCAGCCTCCAGAGCTAGCTCACAGGAACAGGAGACAGACACAGAAGTAGATGAAGTCTTCTGGAAAGCACGGATTGTTCCCATTTTGCATGAATTAGAAAACGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-214-3p(1), mmu-miR-541-5p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
CCAGAAGAACCAGCCTCCAGAGCTAG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARMC2_848_ORF_1
1.2602
0.259373521
0.976531384
777
ORF sequence:
ATGTGTGCAGCCTGCACCCAGCTCCATCGCACGCTGGAGGAAGCGCGCATGCTCGGAAAGAAGTTCAAGCGAAGAACTGTCCTGCTGAAGGCTCTGTATAAGCTAGTGGATGCTGACTCGGACCCGCTCAGCCTGAAGCTTGCCAAACTTATCCTAGCACTTAAAGTGAGTGGAAAGAACCTTCTTAACGTCTGCAAACTGATATTTAAAATCAGCAGGAACGAGAAGAACGACACCCTGATGCAGGAGGATAACATCCTGGAATCATTACTGGAGGTACTGAGAGCTGAAGAGCTGCAAAGTAACACCGAGGCTTTTCTCTACTGCATGGGGGCTCTGAAATTCGTTTCCGGAAGCCCGGGGTTTCTTACTGAGATGGTCAACAAGGGTGCAGTGGAAATATTGGCACAGCTGATAAAGGAAATGACGGAGGACACGGAGAAGCACGGCGTCTGCCTGCCTGATTCTGGCCATTTGCTAGTGCAGACAACCGCGACCTTGAGAAACTTAGTCGATTCACCACTGACGAGAAGCAAGCTCCTGAACATGGGGGCCTTTCCCCATCTCTGCACAGTGATGGAACAGCATGCAGACGACAAGGACATCTGTACCAACATCGCCAGAATCTTTAGCAAACTAACCTCTTACCGCGACTGCTGTGCAGCCCTGGCCAGCTATTCCAGGTGTTACGCCTTGTTTCTGAGTCTATTGAACAAATACCAGAAGAACCAGCCTCCAGAGCTAGCTCACAGGAACAGGAGACAGACACAGAAGTAG
Peptide sequence:
MCAACTQLHRTLEEARMLGKKFKRRTVLLKALYKLVDADSDPLSLKLAKLILALKVSGKNLLNVCKLIFKISRNEKNDTLMQEDNILESLLEVLRAEELQSNTEAFLYCMGALKFVSGSPGFLTEMVNKGAVEILAQLIKEMTEDTEKHGVCLPDSGHLLVQTTATLRNLVDSPLTRSKLLNMGAFPHLCTVMEQHADDKDICTNIARIFSKLTSYRDCCAALASYSRCYALFLSLLNKYQKNQPPELAHRNRRQTQK
IRESfinder result
IRESfinder score
0.449479097
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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