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mmu_circArnt2_439
Basic information of circular RNA
PanCircBase ID:
mmu_circArnt2_439
mm39_Chr. Position ID:
chr7|83931304|83954467|-
Gene name:
Arnt2
Transcript:
ENSMUST00000085077.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
11,10,9,8,7
Exon/intron offsets:
0,1896,3677,22700,23097
Genomic length:
23163
Exon/intron sizes in nt:
75,135,77,86,66
Flanking exon/introns:
chr7:83924694-83931304|chr7:83954467-83960080
Splice length:
439
Other database IDs:
CIRCpedia: MMU_CIRCpedia_31590, circAtlas: mmu-Arnt2_0008
circAtlas: hsa-ARNT2_0008, CIRCpedia: HSA_CIRCpedia_15862
Human Ortholog IDs:
Mature spliced Sequence:
GTGTGGAAACGCTCCCTTGGACCACCTGCCTTTGAACAGAATAACCACCATGAGGAAAAGGTTCAGGAATGGCCTTGGCCCTGTGAAAGAAGGAGAAGCCCAGTATGCTGTGGTCCACTGCACAGGTTACATCAAGGCTTGGCCACCAGCAGGAATGACCATACCCGAAGAAGACGCTGATGTCGGACAAGGCAGTAAATATTGCCTCGTGGCAATTGGGAGGCTCCAGGTGACCAGCTCTCCTGTGTGCATGGACATGAGCGGCATGTCAGTGCCCACAGAGTTCCTGTCACGGCACAACTCTGATGGGATTATCACGTTTGTGGACCCCAGATGCATCAGTGTGATTGGCTACCAGCCCCAGGACCTTCTGGGAAAGGATATTTTGGAATTTTGCCACCCTGAGGATCAGAGCCACCTACGGGAGAGCTTCCAACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAGTGTGATTGGCTACCAGC
58.91
CCAAGGCCATTCCTGAACCT
59.96
178
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGAATTTTGCCACCCTGAGG
59.1
CTCCTTCTTTCACAGGGCCA
59.6
147
PCR template sequence:
CAGTGTGATTGGCTACCAGCCCCAGGACCTTCTGGGAAAGGATATTTTGGAATTTTGCCACCCTGAGGATCAGAGCCACCTACGGGAGAGCTTCCAACAGGTGTGGAAACGCTCCCTTGGACCACCTGCCTTTGAACAGAATAACCACCATGAGGAAAAGGTTCAGGAATGGCCTTGGCCCTGTGAAAGAAGGAGAAGCC
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-411-3p(1), mmu-miR-370-3p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
GAGCTTCCAACAGGTGTGGAAACGCT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARNT2_439_ORF_1
0.7974
0.17947893
0.743900321
570
ORF sequence:
ATGAGGAAAAGGTTCAGGAATGGCCTTGGCCCTGTGAAAGAAGGAGAAGCCCAGTATGCTGTGGTCCACTGCACAGGTTACATCAAGGCTTGGCCACCAGCAGGAATGACCATACCCGAAGAAGACGCTGATGTCGGACAAGGCAGTAAATATTGCCTCGTGGCAATTGGGAGGCTCCAGGTGACCAGCTCTCCTGTGTGCATGGACATGAGCGGCATGTCAGTGCCCACAGAGTTCCTGTCACGGCACAACTCTGATGGGATTATCACGTTTGTGGACCCCAGATGCATCAGTGTGATTGGCTACCAGCCCCAGGACCTTCTGGGAAAGGATATTTTGGAATTTTGCCACCCTGAGGATCAGAGCCACCTACGGGAGAGCTTCCAACAGGTGTGGAAACGCTCCCTTGGACCACCTGCCTTTGAACAGAATAACCACCATGAGGAAAAGGTTCAGGAATGGCCTTGGCCCTGTGAAAGAAGGAGAAGCCCAGTATGCTGTGGTCCACTGCACAGGTTACATCAAGGCTTGGCCACCAGCAGGAATGACCATACCCGAAGAAGACGCTGA
Peptide sequence:
MRKRFRNGLGPVKEGEAQYAVVHCTGYIKAWPPAGMTIPEEDADVGQGSKYCLVAIGRLQVTSSPVCMDMSGMSVPTEFLSRHNSDGIITFVDPRCISVIGYQPQDLLGKDILEFCHPEDQSHLRESFQQVWKRSLGPPAFEQNNHHEEKVQEWPWPCERRRSPVCCGPLHRLHQGLATSRNDHTRRRR
IRESfinder result
IRESfinder score
0.354623692
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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