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mmu_circAtad3a_468
Basic information of circular RNA
PanCircBase ID:
mmu_circAtad3a_468
mm39_Chr. Position ID:
chr4|155838023|155840619|-
Gene name:
Atad3a
Transcript:
ENSMUST00000030903.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
7,6,5,4,3
Exon/intron offsets:
0,315,1190,2112,2494
Genomic length:
2596
Exon/intron sizes in nt:
70,166,70,60,102
Flanking exon/introns:
chr4:155836049-155838023|chr4:155840619-155841548
Splice length:
468
Other database IDs:
circAtlas: mmu-Atad3a_0003
CIRCpedia: HSA_CIRCpedia_106462
Human Ortholog IDs:
Mature spliced Sequence:
GAGTACGAAGCTGCCGTAGAGCAGCTGAAGAGCGAACAGATCCGTGTGCAAGCCGAGGAAAGAAGGAAAACCCTGACTGAAGAGACACGACAGCACCAGGCTAGGGCCCAGTACCAGGATAAGCTCGCTCGACAGCGCTATGAGGACCAGCTGAAACAACAGCAACTTCTGAATGAAGAGAATTTAAGGAAACAAGAGGAGTCTGTGCAGAAGCAGGAGGCCATACGGCGAGCCACTGTGGAGCGCGAGATGGAGCTGAGGCATAAAAACGAGATGTTGCGGGTGGAAGCTGAAGCCCGAGCACGGGCCAAGGCTGATCGAGAGAATGCAGATATCATCCGGGAACAGATTCGACTCAAGGCTGCTGAGCACCGCCAGACCATCTTGGAGTCTATCAGGACAGCTGGCACCTTGCTTGGTGAAGGATTCCGTGCATTTGTGACAGACTGGGACAAAGTGACAGCTACG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTGGTGAAGGATTCCGTGCA
59.89
GGTGCTGTCGTGTCTCTTCA
59.97
150
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTGGTGAAGGATTCCGTGCA
59.89
TGGTGCTGTCGTGTCTCTTC
59.97
151
PCR template sequence:
GCACCGCCAGACCATCTTGGAGTCTATCAGGACAGCTGGCACCTTGCTTGGTGAAGGATTCCGTGCATTTGTGACAGACTGGGACAAAGTGACAGCTACGGAGTACGAAGCTGCCGTAGAGCAGCTGAAGAGCGAACAGATCCGTGTGCAAGCCGAGGAAAGAAGGAAAACCCTGACTGAAGAGACACGACAGCACCAGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-18a-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGTGACAGCTACGGAGTACGAAGCTG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATAD3A_468_ORF_1
1.1293
0.545123722
0.982389346
687
ORF sequence:
ATGGAGCTGAGGCATAAAAACGAGATGTTGCGGGTGGAAGCTGAAGCCCGAGCACGGGCCAAGGCTGATCGAGAGAATGCAGATATCATCCGGGAACAGATTCGACTCAAGGCTGCTGAGCACCGCCAGACCATCTTGGAGTCTATCAGGACAGCTGGCACCTTGCTTGGTGAAGGATTCCGTGCATTTGTGACAGACTGGGACAAAGTGACAGCTACGGAGTACGAAGCTGCCGTAGAGCAGCTGAAGAGCGAACAGATCCGTGTGCAAGCCGAGGAAAGAAGGAAAACCCTGACTGAAGAGACACGACAGCACCAGGCTAGGGCCCAGTACCAGGATAAGCTCGCTCGACAGCGCTATGAGGACCAGCTGAAACAACAGCAACTTCTGAATGAAGAGAATTTAAGGAAACAAGAGGAGTCTGTGCAGAAGCAGGAGGCCATACGGCGAGCCACTGTGGAGCGCGAGATGGAGCTGAGGCATAAAAACGAGATGTTGCGGGTGGAAGCTGAAGCCCGAGCACGGGCCAAGGCTGATCGAGAGAATGCAGATATCATCCGGGAACAGATTCGACTCAAGGCTGCTGAGCACCGCCAGACCATCTTGGAGTCTATCAGGACAGCTGGCACCTTGCTTGGTGAAGGATTCCGTGCATTTGTGACAGACTGGGACAAAGTGACAGCTACG
Peptide sequence:
MELRHKNEMLRVEAEARARAKADRENADIIREQIRLKAAEHRQTILESIRTAGTLLGEGFRAFVTDWDKVTATEYEAAVEQLKSEQIRVQAEERRKTLTEETRQHQARAQYQDKLARQRYEDQLKQQQLLNEENLRKQEESVQKQEAIRRATVEREMELRHKNEMLRVEAEARARAKADRENADIIREQIRLKAAEHRQTILESIRTAGTLLGEGFRAFVTDWDKVTAT
IRESfinder result
IRESfinder score
0.187231497
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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