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mmu_circAdgrl3_510
Basic information of circular RNA
PanCircBase ID:
mmu_circAdgrl3_510
mm39_Chr. Position ID:
chr5|81215537|81477807|+
Gene name:
Adgrl3
Transcript:
ENSMUST00000147226.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
2,3,4,5
Exon/intron offsets:
0,129875,242180,262066
Genomic length:
262270
Exon/intron sizes in nt:
3,16,62,09,204
Flanking exon/introns:
chr5:81169192-81215537|chr5:81477807-81535621
Splice length:
510
Other database IDs:
CIRCpedia: MMU_CIRCpedia_30705
Human Ortholog IDs:
Mature spliced Sequence:
ATGCTGATTTGAAGAACTGCCCTGAAAACTGAAATGATTAATTCAGAAAGGCAGAAGACAAAGCTATGGATTTTTAGCAGTCACAGAACAAATTAAGGTGTCTCAAGTGGGATATCAGTGTTTATTTTTGAGGAATTTTTCTTTCTGTTTGTGTTTGGTTTTTAATCATTGATATTGGAGTACTGAAGAGGAGCCAGAAGTCTATTGATTTGGTTTCACTTCAGACCAGCCATTCCTCCGAGAACACAGTCATGTGGCCACCACAGCTACTCATCCTCACGATGCTTTTAGCACCTGTAGTTCATGGTGGCAAGCACAATGAGAGACATCCAGCCCTCGCTGCTCCACTGCGACACGCTGAGCGCAGCCCAGGAGGCGCTCTCCCTCCCAGACATCTCCTTCAGCAGCCAGCGGCAGAGCGCTCAACGGCTCATCGAGGACAGGGGCCACGCGGAGCTGCCAGAGGAGTCCGTGGACCAGGTGCCCCAGGAGCACAGATTGCAGCCCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTCAACGGCTCATCGAGGAC
60.53
TCCATAGCTTTGTCTTCTGCCT
59.43
159
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAACGGCTCATCGAGGACAG
60.8
TCCATAGCTTTGTCTTCTGCCT
59.43
157
PCR template sequence:
GCGGCAGAGCGCTCAACGGCTCATCGAGGACAGGGGCCACGCGGAGCTGCCAGAGGAGTCCGTGGACCAGGTGCCCCAGGAGCACAGATTGCAGCCCAAGATGCTGATTTGAAGAACTGCCCTGAAAACTGAAATGATTAATTCAGAAAGGCAGAAGACAAAGCTATGGATTTTTAGCAGTCACAGAACAAATTAAGGTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-134-5p(1), mmu-miR-339-5p(1), mmu-miR-503-5p(1), mmu-miR-149-5p(1), mmu-miR-218-5p(1), mmu-miR-339-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATTGCAGCCCAAGATGCTGATTTGAA
siRNA sets
TTCAAATCAGCATCTTGGG,TCAAATCAGCATCTTGGGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCADGRL3_510_ORF_1
1.2812
0.1300995
0.437212431
291
ORF sequence:
ATGTGGCCACCACAGCTACTCATCCTCACGATGCTTTTAGCACCTGTAGTTCATGGTGGCAAGCACAATGAGAGACATCCAGCCCTCGCTGCTCCACTGCGACACGCTGAGCGCAGCCCAGGAGGCGCTCTCCCTCCCAGACATCTCCTTCAGCAGCCAGCGGCAGAGCGCTCAACGGCTCATCGAGGACAGGGGCCACGCGGAGCTGCCAGAGGAGTCCGTGGACCAGGTGCCCCAGGAGCACAGATTGCAGCCCAAGATGCTGATTTGAAGAACTGCCCTGAAAACTGA
Peptide sequence:
MWPPQLLILTMLLAPVVHGGKHNERHPALAAPLRHAERSPGGALPPRHLLQQPAAERSTAHRGQGPRGAARGVRGPGAPGAQIAAQDADLKNCPEN
IRESfinder result
IRESfinder score
0.753075533
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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