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mmu_circAdgrl3_1283
Basic information of circular RNA
PanCircBase ID:
mmu_circAdgrl3_1283
mm39_Chr. Position ID:
chr5|81836355|81888993|+
Gene name:
Adgrl3
Transcript:
ENSMUST00000132375.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
13,14,15,16,17,18,19,20
Exon/intron offsets:
0,1056,4984,5942,35553,38160,50518,52546
Genomic length:
52638
Exon/intron sizes in nt:
184,123,209,177,210,221,67,92
Flanking exon/introns:
chr5:81811271-81836355|chr5:81888993-81905832
Splice length:
1283
Other database IDs:
circBase: mmu_circ_0001360, CIRCpedia: MMU_CIRCpedia_30910, circAtlas: mmu-Lphn3_0001
circBase: hsa_circ_0126761, circAtlas: hsa-ADGRL3_0001, CIRCpedia: HSA_CIRCpedia_48959
Human Ortholog IDs:
Mature spliced Sequence:
GCGATGGTGGAGACAGTTAACAACCTCCTTCAGCCACAAGCTTTGAATGCCTGGAGAGACCTGACGACAAGTGATCAACTGCGTGCGGCCACCATGTTGCTTGACACTGTGGAGGAGAGCGCTTTCGTGTTAGCTGATAACCTTTTGAAGACCGACATTGTCAGGGAGAATACAGACAATATTCAGTTAGAAGTTGCAAGACTGAGCACGGAAGGAAACCTAGAAGATCTAAAATTCCCAGAGAACATGGGCCACGGAAGTACCATCCAGCTCTCAGCAAACACATTAAAGCAAAATGGCCGGAATGGAGAGATTAGAGTGGCTTTTGTCCTGTATAATAACCTGGGTCCTTATTTGTCTACGGAGAATGCCAGTATGAAGTTGGGCACAGAAGCTATGTCCACAAATCACTCGGTTATCGTCAATTCCCCTGTTATTACAGCAGCAATAAATAAGGAATTCAGTAATAAAGTGTATTTGGCTGATCCTGTGGTATTTACTGTTAAACACATCAAGCAGTCAGAAGAAAATTTCAACCCTAACTGTTCATTTTGGAGCTATTCCAAGCGCACAATGACAGGTTATTGGTCAACACAAGGCTGTCGACTCCTGACAACCAACAAGACACATACTACATGCTCCTGTAACCACCTCACCAACTTTGCAGTATTGATGGCACATGTGGAAGTTAAGCACAGCGATGCAGTCCACGATCTTCTTCTGGATGTGATCACGTGGGTTGGCATCTTGCTGTCCCTTGTCTGTCTCCTGATTTGCATCTTCACATTCTGCTTCTTCCGGGGACTCCAGAGTGACCGCAACACCATTCACAAGAACCTCTGCATCAGCCTGTTCGTGGCAGAACTGCTCTTCCTGATTGGAATCAACAGAACCGACCAACCAATTGCCTGTGCAGTGTTCGCGGCTCTTTTGCATTTCTTCTTCTTGGCGGCCTTCACCTGGATGTTTCTAGAAGGGGTGCAGCTGTATATCATGCTGGTGGAGGTCTTTGAGAGCGAGCATTCCCGTAGGAAGTACTTTTATCTGGTCGGCTATGGGATGCCCGCGCTCATCGTGGCCGTTTCTGCGGCCGTCGACTACAGGAGCTACGGAACAGACAAAGTATGTTGGCTTCGCCTTGACACCTACTTCATTTGGAGTTTTATAGGACCGGCGACCTTGATAATTATGCTGAATGTCATCTTCCTTGGGATTGCTTTATACAAAATGTTTCACCATACTGCCATACTGAAACCTGAATCAGGCTGTCTTGACAATATCAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTCATCTTCCTTGGGATTGCT
59.69
CGCACGCAGTTGATCACTTG
60.45
174
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTCATCTTCCTTGGGATTGCT
59.69
GCACGCAGTTGATCACTTGT
59.41
173
PCR template sequence:
TAATTATGCTGAATGTCATCTTCCTTGGGATTGCTTTATACAAAATGTTTCACCATACTGCCATACTGAAACCTGAATCAGGCTGTCTTGACAATATCAAGCGATGGTGGAGACAGTTAACAACCTCCTTCAGCCACAAGCTTTGAATGCCTGGAGAGACCTGACGACAAGTGATCAACTGCGTGCGGCCACCATGTTGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
16
Interacting miRNAs (#binding sites)
mmu-miR-200c-3p(2), mmu-miR-137-3p(1), mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-1a-3p(1), mmu-miR-200b-3p(1), mmu-miR-181a-5p(1), mmu-miR-31-5p(1), mmu-miR-324-5p(1), mmu-miR-494-3p(1), mmu-miR-218-5p(1), mmu-miR-340-5p(1), mmu-miR-1198-5p(1), mmu-miR-3470b(1), mmu-miR-670-5p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TTGACAATATCAAGCGATGGTGGAGA
siRNA sets
ACCATCGCTTGATATTGTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCADGRL3_1283_ORF_1
1.0609
0.170803271
0.999029779
1326
ORF sequence:
ATGGTGGAGACAGTTAACAACCTCCTTCAGCCACAAGCTTTGAATGCCTGGAGAGACCTGACGACAAGTGATCAACTGCGTGCGGCCACCATGTTGCTTGACACTGTGGAGGAGAGCGCTTTCGTGTTAGCTGATAACCTTTTGAAGACCGACATTGTCAGGGAGAATACAGACAATATTCAGTTAGAAGTTGCAAGACTGAGCACGGAAGGAAACCTAGAAGATCTAAAATTCCCAGAGAACATGGGCCACGGAAGTACCATCCAGCTCTCAGCAAACACATTAAAGCAAAATGGCCGGAATGGAGAGATTAGAGTGGCTTTTGTCCTGTATAATAACCTGGGTCCTTATTTGTCTACGGAGAATGCCAGTATGAAGTTGGGCACAGAAGCTATGTCCACAAATCACTCGGTTATCGTCAATTCCCCTGTTATTACAGCAGCAATAAATAAGGAATTCAGTAATAAAGTGTATTTGGCTGATCCTGTGGTATTTACTGTTAAACACATCAAGCAGTCAGAAGAAAATTTCAACCCTAACTGTTCATTTTGGAGCTATTCCAAGCGCACAATGACAGGTTATTGGTCAACACAAGGCTGTCGACTCCTGACAACCAACAAGACACATACTACATGCTCCTGTAACCACCTCACCAACTTTGCAGTATTGATGGCACATGTGGAAGTTAAGCACAGCGATGCAGTCCACGATCTTCTTCTGGATGTGATCACGTGGGTTGGCATCTTGCTGTCCCTTGTCTGTCTCCTGATTTGCATCTTCACATTCTGCTTCTTCCGGGGACTCCAGAGTGACCGCAACACCATTCACAAGAACCTCTGCATCAGCCTGTTCGTGGCAGAACTGCTCTTCCTGATTGGAATCAACAGAACCGACCAACCAATTGCCTGTGCAGTGTTCGCGGCTCTTTTGCATTTCTTCTTCTTGGCGGCCTTCACCTGGATGTTTCTAGAAGGGGTGCAGCTGTATATCATGCTGGTGGAGGTCTTTGAGAGCGAGCATTCCCGTAGGAAGTACTTTTATCTGGTCGGCTATGGGATGCCCGCGCTCATCGTGGCCGTTTCTGCGGCCGTCGACTACAGGAGCTACGGAACAGACAAAGTATGTTGGCTTCGCCTTGACACCTACTTCATTTGGAGTTTTATAGGACCGGCGACCTTGATAATTATGCTGAATGTCATCTTCCTTGGGATTGCTTTATACAAAATGTTTCACCATACTGCCATACTGAAACCTGAATCAGGCTGTCTTGACAATATCAAGCGATGGTGGAGACAGTTAACAACCTCCTTCAGCCACAAGCTTTGA
Peptide sequence:
MVETVNNLLQPQALNAWRDLTTSDQLRAATMLLDTVEESAFVLADNLLKTDIVRENTDNIQLEVARLSTEGNLEDLKFPENMGHGSTIQLSANTLKQNGRNGEIRVAFVLYNNLGPYLSTENASMKLGTEAMSTNHSVIVNSPVITAAINKEFSNKVYLADPVVFTVKHIKQSEENFNPNCSFWSYSKRTMTGYWSTQGCRLLTTNKTHTTCSCNHLTNFAVLMAHVEVKHSDAVHDLLLDVITWVGILLSLVCLLICIFTFCFFRGLQSDRNTIHKNLCISLFVAELLFLIGINRTDQPIACAVFAALLHFFFLAAFTWMFLEGVQLYIMLVEVFESEHSRRKYFYLVGYGMPALIVAVSAAVDYRSYGTDKVCWLRLDTYFIWSFIGPATLIIMLNVIFLGIALYKMFHHTAILKPESGCLDNIKRWWRQLTTSFSHKL
IRESfinder result
IRESfinder score
0.572851962
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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