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mmu_circArnt2_1178
Basic information of circular RNA
PanCircBase ID:
mmu_circArnt2_1178
mm39_Chr. Position ID:
chr7|83911600|83954467|-
Gene name:
Arnt2
Transcript:
ENSMUST00000085077.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
11
Exon/intron indexes:
17,16,15,14,13,12,11,10,9,8,7
Exon/intron offsets:
0,786,3182,5512,6446,12942,19704,21600,23381,42404,42801
Genomic length:
42867
Exon/intron sizes in nt:
151,139,100,124,73,152,75,135,77,86,66
Flanking exon/introns:
chr7:83900710-83911600|chr7:83954467-83960080
Splice length:
1178
Other database IDs:
CIRCpedia: MMU_CIRCpedia_226945, circAtlas: mmu-Arnt2_0002
circAtlas: hsa-ARNT2_0005
Human Ortholog IDs:
Mature spliced Sequence:
GTGTGGAAACGCTCCCTTGGACCACCTGCCTTTGAACAGAATAACCACCATGAGGAAAAGGTTCAGGAATGGCCTTGGCCCTGTGAAAGAAGGAGAAGCCCAGTATGCTGTGGTCCACTGCACAGGTTACATCAAGGCTTGGCCACCAGCAGGAATGACCATACCCGAAGAAGACGCTGATGTCGGACAAGGCAGTAAATATTGCCTCGTGGCAATTGGGAGGCTCCAGGTGACCAGCTCTCCTGTGTGCATGGACATGAGCGGCATGTCAGTGCCCACAGAGTTCCTGTCACGGCACAACTCTGATGGGATTATCACGTTTGTGGACCCCAGATGCATCAGTGTGATTGGCTACCAGCCCCAGGACCTTCTGGGAAAGGATATTTTGGAATTTTGCCACCCTGAGGATCAGAGCCACCTACGGGAGAGCTTCCAACAGGTGGTTAAGCTGAAGGGCCAAGTGCTGTCGGTCATGTATCGGTTCCGCACCAAGAACCGGGAGTGGCTGTTGATCCGTACCAGCAGCTTCACCTTCCAGAACCCCTACTCTGATGAGATCGAGTACGTCATCTGCACCAACACCAATGTCAAGCAACTTCAGCAACAGCAGGCAGAACTGGAGGTACATCAGCGAGATGGGCTGTCGTCATATGACTTATCTCAGGTCCCAGTACCCAACCTACCCGCTGGTGTTCACGAGGCCGGGAAGTCTGTGGAAAAGGCAGATGCAATCTTCTCCCAAGAGAGAGACCCTCGTTTTGCTGAGATGTTTGCAGGCATCAGTGCATCTGAGAAGAAGATGATGAGCTCAGCCTCAGCATCAGGCAGCCAGCAGATCTACTCCCAAGGAAGTCCATTCCCTGCCGGGCACTCGGGCAAGGCCTTCAGCTCTTCCGTGGTCCATGTGCCTGGAGTGAATGACATTCAGTCCTCCTCCTCAACGGGACAGAACATATCCCAGATCTCTCGGCAGCTGAACCAGGGCCAGGTGGCATGGACAGGCAGCCGTCCACCGTTCCCAGGGCAGCCCAGCAAGACGCAGTCATCTGCCTTCGGAATTGGATCAAGCCACCCTTACCCGGCTGACCCTTCATCCTACAGTCCTCTCTCCAGCCCAGCTGCCTCCTCACCAAGTGGAAACGCATACCCCAGTCTTGCCAACAGGACTCCAGGGTTTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TACAGTCCTCTCTCCAGCCC
60.03
CCAAGGCCATTCCTGAACCT
59.96
160
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGGCTGACCCTTCATCCTAC
59.89
CCAAGGCCATTCCTGAACCT
59.96
177
PCR template sequence:
CCGGCTGACCCTTCATCCTACAGTCCTCTCTCCAGCCCAGCTGCCTCCTCACCAAGTGGAAACGCATACCCCAGTCTTGCCAACAGGACTCCAGGGTTTGGTGTGGAAACGCTCCCTTGGACCACCTGCCTTTGAACAGAATAACCACCATGAGGAAAAGGTTCAGGAATGGCCTTGGCCCTGTGAAAGAAGGAGAAGCC
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-370-3p(2), mmu-miR-31-5p(1), mmu-miR-19a-3p(1), mmu-miR-709(1), mmu-miR-431-5p(1), mmu-miR-411-3p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
ACTCCAGGGTTTGGTGTGGAAACGCT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARNT2_1178_ORF_1
0.7807
0.325024075
0.997219425
1164
ORF sequence:
ATGAGGAAAAGGTTCAGGAATGGCCTTGGCCCTGTGAAAGAAGGAGAAGCCCAGTATGCTGTGGTCCACTGCACAGGTTACATCAAGGCTTGGCCACCAGCAGGAATGACCATACCCGAAGAAGACGCTGATGTCGGACAAGGCAGTAAATATTGCCTCGTGGCAATTGGGAGGCTCCAGGTGACCAGCTCTCCTGTGTGCATGGACATGAGCGGCATGTCAGTGCCCACAGAGTTCCTGTCACGGCACAACTCTGATGGGATTATCACGTTTGTGGACCCCAGATGCATCAGTGTGATTGGCTACCAGCCCCAGGACCTTCTGGGAAAGGATATTTTGGAATTTTGCCACCCTGAGGATCAGAGCCACCTACGGGAGAGCTTCCAACAGGTGGTTAAGCTGAAGGGCCAAGTGCTGTCGGTCATGTATCGGTTCCGCACCAAGAACCGGGAGTGGCTGTTGATCCGTACCAGCAGCTTCACCTTCCAGAACCCCTACTCTGATGAGATCGAGTACGTCATCTGCACCAACACCAATGTCAAGCAACTTCAGCAACAGCAGGCAGAACTGGAGGTACATCAGCGAGATGGGCTGTCGTCATATGACTTATCTCAGGTCCCAGTACCCAACCTACCCGCTGGTGTTCACGAGGCCGGGAAGTCTGTGGAAAAGGCAGATGCAATCTTCTCCCAAGAGAGAGACCCTCGTTTTGCTGAGATGTTTGCAGGCATCAGTGCATCTGAGAAGAAGATGATGAGCTCAGCCTCAGCATCAGGCAGCCAGCAGATCTACTCCCAAGGAAGTCCATTCCCTGCCGGGCACTCGGGCAAGGCCTTCAGCTCTTCCGTGGTCCATGTGCCTGGAGTGAATGACATTCAGTCCTCCTCCTCAACGGGACAGAACATATCCCAGATCTCTCGGCAGCTGAACCAGGGCCAGGTGGCATGGACAGGCAGCCGTCCACCGTTCCCAGGGCAGCCCAGCAAGACGCAGTCATCTGCCTTCGGAATTGGATCAAGCCACCCTTACCCGGCTGACCCTTCATCCTACAGTCCTCTCTCCAGCCCAGCTGCCTCCTCACCAAGTGGAAACGCATACCCCAGTCTTGCCAACAGGACTCCAGGGTTTGGTGTGGAAACGCTCCCTTGGACCACCTGCCTTTGA
Peptide sequence:
MRKRFRNGLGPVKEGEAQYAVVHCTGYIKAWPPAGMTIPEEDADVGQGSKYCLVAIGRLQVTSSPVCMDMSGMSVPTEFLSRHNSDGIITFVDPRCISVIGYQPQDLLGKDILEFCHPEDQSHLRESFQQVVKLKGQVLSVMYRFRTKNREWLLIRTSSFTFQNPYSDEIEYVICTNTNVKQLQQQQAELEVHQRDGLSSYDLSQVPVPNLPAGVHEAGKSVEKADAIFSQERDPRFAEMFAGISASEKKMMSSASASGSQQIYSQGSPFPAGHSGKAFSSSVVHVPGVNDIQSSSSTGQNISQISRQLNQGQVAWTGSRPPFPGQPSKTQSSAFGIGSSHPYPADPSSYSPLSSPAASSPSGNAYPSLANRTPGFGVETLPWTTCL
IRESfinder result
IRESfinder score
0.410147162
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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