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mmu_circAmbra1_737
Basic information of circular RNA
PanCircBase ID:
mmu_circAmbra1_737
mm39_Chr. Position ID:
chr2|91596791|91601322|+
Gene name:
Ambra1
Transcript:
ENSMUST00000099712.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
2,3,4,5,6
Exon/intron offsets:
0,610,1243,2468,4464
Genomic length:
4531
Exon/intron sizes in nt:
254,59,184,173,67
Flanking exon/introns:
chr2:91560724-91596791|chr2:91601322-91602635
Splice length:
737
Other database IDs:
circAtlas: mmu-Ambra1_0023
CIRCpedia: HSA_CIRCpedia_4463
Human Ortholog IDs:
Mature spliced Sequence:
ATTTCCATGAGGACAGCTGACAAGGACCTGAATGGCCTCATTTTAGCTATTTCTGTGTGTGGAGCTATTGCTTGCTCCTTCAGTTCTGATCCCTGGTGCGACAGTGGCTCCTGAGCACCATGAAAGTTGTCCCAGAGAAGAATGCTGTACGAATCCTCTGGGGCCGAGAACGGGGCACTCGTGCCATGGGTGCCCAGCGGCTTCTGCAGGAGCTGGTGGAGGATAAGACTCGATGGATGAAATGGGAGGGCAAGAGAGTAGAACTGCCTGATAGTCCACGCTCGACCTTCTTACTGGCCTTCAGCCCAGACAGGACTCTCTTGGCATCCACACATGTGAACCATAACATCTATATTACAGAGGTTAAGACTGGCAAGTGTGTTCACTCTCTGATCGGACACCGCCGTACTCCATGGTGTGTCACTTTTCACCCCACCATCTCAGGCCTTATTGCTTCTGGTTGCCTAGATGGGGAAGTTAGGATTTGGGATTTACATGGGGGCAGTGAAAGCTGGTTCACAGACAGCAACAATGCCATAGCCTCCTTGGCTTTCCACCCTACGGCTCAGCTTCTACTAATTGCCACTGCAAATGAGATCCATTTCTGGGATTGGAGTCGTCGGGAGCCCTTTGCTGTGGTGAAAACAGCCAGTGAGATGGAGCGTGTCCGCCTGGTGAGATTTGATCCACTTGGACACTACTTACTTACAGCTATTGTTAACCCTTCTAATCAGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTCCGCCTGGTGAGATTTGA
60.04
GCACCAGGGATCAGAACTGA
59.38
171
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTCCGCCTGGTGAGATTTGA
60.04
CGCACCAGGGATCAGAACTG
60.74
172
PCR template sequence:
GGTGAAAACAGCCAGTGAGATGGAGCGTGTCCGCCTGGTGAGATTTGATCCACTTGGACACTACTTACTTACAGCTATTGTTAACCCTTCTAATCAGCAGATTTCCATGAGGACAGCTGACAAGGACCTGAATGGCCTCATTTTAGCTATTTCTGTGTGTGGAGCTATTGCTTGCTCCTTCAGTTCTGATCCCTGGTGCG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-216a-5p(1), mmu-miR-182-5p(1), mmu-miR-324-3p(1), mmu-miR-383-5p(1), mmu-miR-1187(1)
siRNAs for circular RNA silencing
Junction sequence
TTCTAATCAGCAGATTTCCATGAGGA
siRNA sets
ATGGAAATCTGCTGATTAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAMBRA1_737_ORF_1
0.9632
0.170364042
0.923617048
732
ORF sequence:
ATGAAAGTTGTCCCAGAGAAGAATGCTGTACGAATCCTCTGGGGCCGAGAACGGGGCACTCGTGCCATGGGTGCCCAGCGGCTTCTGCAGGAGCTGGTGGAGGATAAGACTCGATGGATGAAATGGGAGGGCAAGAGAGTAGAACTGCCTGATAGTCCACGCTCGACCTTCTTACTGGCCTTCAGCCCAGACAGGACTCTCTTGGCATCCACACATGTGAACCATAACATCTATATTACAGAGGTTAAGACTGGCAAGTGTGTTCACTCTCTGATCGGACACCGCCGTACTCCATGGTGTGTCACTTTTCACCCCACCATCTCAGGCCTTATTGCTTCTGGTTGCCTAGATGGGGAAGTTAGGATTTGGGATTTACATGGGGGCAGTGAAAGCTGGTTCACAGACAGCAACAATGCCATAGCCTCCTTGGCTTTCCACCCTACGGCTCAGCTTCTACTAATTGCCACTGCAAATGAGATCCATTTCTGGGATTGGAGTCGTCGGGAGCCCTTTGCTGTGGTGAAAACAGCCAGTGAGATGGAGCGTGTCCGCCTGGTGAGATTTGATCCACTTGGACACTACTTACTTACAGCTATTGTTAACCCTTCTAATCAGCAGATTTCCATGAGGACAGCTGACAAGGACCTGAATGGCCTCATTTTAGCTATTTCTGTGTGTGGAGCTATTGCTTGCTCCTTCAGTTCTGATCCCTGGTGCGACAGTGGCTCCTGA
Peptide sequence:
MKVVPEKNAVRILWGRERGTRAMGAQRLLQELVEDKTRWMKWEGKRVELPDSPRSTFLLAFSPDRTLLASTHVNHNIYITEVKTGKCVHSLIGHRRTPWCVTFHPTISGLIASGCLDGEVRIWDLHGGSESWFTDSNNAIASLAFHPTAQLLLIATANEIHFWDWSRREPFAVVKTASEMERVRLVRFDPLGHYLLTAIVNPSNQQISMRTADKDLNGLILAISVCGAIACSFSSDPWCDSGS
IRESfinder result
IRESfinder score
0.632453356
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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