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mmu_circArpc2_475
Basic information of circular RNA
PanCircBase ID:
mmu_circArpc2_475
mm39_Chr. Position ID:
chr1|74285238|74295210|+
Gene name:
Arpc2
Transcript:
ENSMUST00000113820.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
3,4,5,6,7
Exon/intron offsets:
0,2052,5174,8748,9878
Genomic length:
9972
Exon/intron sizes in nt:
35,113,46,187,94
Flanking exon/introns:
chr1:74276058-74285238|chr1:74295210-74301617
Splice length:
475
Other database IDs:
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_122901
Human Ortholog IDs:
Mature spliced Sequence:
AAACAAACCAGAAGCTGTAGAAGTAACATTTGCAGATTTTGATGGCGTCCTTTATCATATTTCAAATCCTAATGGAGACAAAACAAAAGTGATGGTCAGTATTTCTTTGAAATTCTACAAGGAACTTCAGGCACATGGAGCTGATGAGTTGTTAAAGAGAGTGTATGGGAGCTTCTTGGTAAATCCAGAACCAGGATATAATGTTTCTTTGCTATATGACCTGGAAAATCTACCTGCATCCAAGGATTCTATTGTGCATCAGGCTGGCATGTTGAAGCGAAATTGTTTTGCCTCTGTGTTTGAGAAATACTTCCAATTCCAAGAAGAGGGCAAAGAAGGAGAGAACAGAGCAGTTATCCATTATAGGGATGATGAGACCATGTATGTGGAATCTAAGAAAGACAGAGTCACAGTAGTCTTCAGCACGGTTTTTAAAGATGACGACGATGTGGTCATCGGAAAGGTGTTCATGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CACAGTAGTCTTCAGCACGGT
60
ACCATCACTTTTGTTTTGTCTCCA
59.29
163
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCACAGTAGTCTTCAGCACGG
59.73
ACCATCACTTTTGTTTTGTCTCCA
59.29
164
PCR template sequence:
GACCATGTATGTGGAATCTAAGAAAGACAGAGTCACAGTAGTCTTCAGCACGGTTTTTAAAGATGACGACGATGTGGTCATCGGAAAGGTGTTCATGCAGAAACAAACCAGAAGCTGTAGAAGTAACATTTGCAGATTTTGATGGCGTCCTTTATCATATTTCAAATCCTAATGGAGACAAAACAAAAGTGATGGTCAGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-7b-5p(1), mmu-miR-7a-5p(1), mmu-miR-136-5p(1), mmu-miR-362-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GGTGTTCATGCAGAAACAAACCAGAA
siRNA sets
TTCTGGTTTGTTTCTGCAT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARPC2_475_ORF_1
0.9268
0.132153627
0.668295677
513
ORF sequence:
ATGACGACGATGTGGTCATCGGAAAGGTGTTCATGCAGAAACAAACCAGAAGCTGTAGAAGTAACATTTGCAGATTTTGATGGCGTCCTTTATCATATTTCAAATCCTAATGGAGACAAAACAAAAGTGATGGTCAGTATTTCTTTGAAATTCTACAAGGAACTTCAGGCACATGGAGCTGATGAGTTGTTAAAGAGAGTGTATGGGAGCTTCTTGGTAAATCCAGAACCAGGATATAATGTTTCTTTGCTATATGACCTGGAAAATCTACCTGCATCCAAGGATTCTATTGTGCATCAGGCTGGCATGTTGAAGCGAAATTGTTTTGCCTCTGTGTTTGAGAAATACTTCCAATTCCAAGAAGAGGGCAAAGAAGGAGAGAACAGAGCAGTTATCCATTATAGGGATGATGAGACCATGTATGTGGAATCTAAGAAAGACAGAGTCACAGTAGTCTTCAGCACGGTTTTTAAAGATGACGACGATGTGGTCATCGGAAAGGTGTTCATGCAG
Peptide sequence:
MTTMWSSERCSCRNKPEAVEVTFADFDGVLYHISNPNGDKTKVMVSISLKFYKELQAHGADELLKRVYGSFLVNPEPGYNVSLLYDLENLPASKDSIVHQAGMLKRNCFASVFEKYFQFQEEGKEGENRAVIHYRDDETMYVESKKDRVTVVFSTVFKDDDDVVIGKVFMQ
IRESfinder result
IRESfinder score
0.593046641
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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