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mmu_circAmbra1_2188
Basic information of circular RNA
PanCircBase ID:
mmu_circAmbra1_2188
mm39_Chr. Position ID:
chr2|91596791|91640554|+
Gene name:
Ambra1
Transcript:
ENSMUST00000099712.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
2,3,4,5,6,7,8,9,10
Exon/intron offsets:
0,610,1243,2468,4464,5844,6264,38577,43583
Genomic length:
43763
Exon/intron sizes in nt:
254,59,184,173,67,147,1037,87,180
Flanking exon/introns:
chr2:91560724-91596791|chr2:91640554-91654804
Splice length:
2188
Other database IDs:
CIRCpedia: MMU_CIRCpedia_34194, circAtlas: mmu-Ambra1_0007
circAtlas: hsa-AMBRA1_0007, CIRCpedia: HSA_CIRCpedia_4457
Human Ortholog IDs:
Mature spliced Sequence:
ATTTCCATGAGGACAGCTGACAAGGACCTGAATGGCCTCATTTTAGCTATTTCTGTGTGTGGAGCTATTGCTTGCTCCTTCAGTTCTGATCCCTGGTGCGACAGTGGCTCCTGAGCACCATGAAAGTTGTCCCAGAGAAGAATGCTGTACGAATCCTCTGGGGCCGAGAACGGGGCACTCGTGCCATGGGTGCCCAGCGGCTTCTGCAGGAGCTGGTGGAGGATAAGACTCGATGGATGAAATGGGAGGGCAAGAGAGTAGAACTGCCTGATAGTCCACGCTCGACCTTCTTACTGGCCTTCAGCCCAGACAGGACTCTCTTGGCATCCACACATGTGAACCATAACATCTATATTACAGAGGTTAAGACTGGCAAGTGTGTTCACTCTCTGATCGGACACCGCCGTACTCCATGGTGTGTCACTTTTCACCCCACCATCTCAGGCCTTATTGCTTCTGGTTGCCTAGATGGGGAAGTTAGGATTTGGGATTTACATGGGGGCAGTGAAAGCTGGTTCACAGACAGCAACAATGCCATAGCCTCCTTGGCTTTCCACCCTACGGCTCAGCTTCTACTAATTGCCACTGCAAATGAGATCCATTTCTGGGATTGGAGTCGTCGGGAGCCCTTTGCTGTGGTGAAAACAGCCAGTGAGATGGAGCGTGTCCGCCTGGTGAGATTTGATCCACTTGGACACTACTTACTTACAGCTATTGTTAACCCTTCTAATCAGCAGGGTGATGACGAACCAGAAATCCCTATAGATGGAACAGAGTTATCTCATTACCGTCAACGTGCCCTCCTGCAATCACAGCCAGTTCGCCGGACACCTCTCCTCCACAATTTCCTGCACATGCTGTCCTCCCGTTCCTCTGGCATCCAGACCGAGCCCTTCCATCCCCCGGAGCAGGCTTCATCAACGCAGCAGGACCAGGGCCTCCTGAACCGGCCGTCTGCCTTCAGTACAGTCCAGAGCAGCACTGCGGGCAACACGCTCCGCAACCTCAGTCTGGGTCCTACCCGGCGCTCTTTGGGGGGCCCTTTGTCTAGCCACCCTTCTAGGTATCACAGAGAACTAGCCCCTGGGCTGACAGGTTCTGAGTGGACCCGGACAGTACTCACTCTGAACTCTCGTTCTGAGGTAGAATCTATGCCCCCACCGAGGACCAGTGCCTCCTCAGTGAGTTTGCTTTCTGTACTGAGACAGCAGGAAGGTGGCTCTCAGGCATCTGTGTATACTTCAGCCACAGAAGGGAGGGGTTTTCCATCATCAGGGTTGGCAACTGAGTCAGATGGAGGGAATGGTTCCAGCCAAAACAACTCAGGCAGCATTCGCCATGAGCTTCAATGTGACCTGAGACGCTTCTTTTTGGAGTATGACAGGCTGCAGGAGCTGGATCAGAGCCTGAGTGGGGAAACTCCCCAGACCCAACAGGCCCAGGAAATGCTCAACAATAATATTGAATCTGAGAGACCAGGTCCTTCCCACCTGCCTACCCCACACAGCAGTGAGAACAACTCCAACCTGTCTCGGGGCCACCTTAATCGATGCCGTGCTTGCCATAATCTTCTAACCTTCAACAATGATACCCTTCGTTGGGAAAGAACCACACCTAACTACTCATCTGGTGAGGCTAGCTCTTCCTGGCACGTCTCCACTACCTTTGAGGGCATGCCACCAAGTGGCAACCAGCTACCACCTCTTGAGCGGACTGAGGGCCAAATGCCTAGCTCCAGCAGGCTGGAGTTGAGCAGCTCTGCTAGTTCACAAGAGGAGAGGACTGTGGGGGTGGCCTTTAACCAGGAGACAGGCCACTGGGAACGCATTTATACCCAGTCCAGCAGATCTGGAACTGTATCACAGGAGGCCTTACATCAAGATATGCCTGAAGAAAGCTCTGAGGAAGACTCCCTCAGGAGGAGGCTGCTGGAGTCTTCCCTCATTTCATTATCCCGTTATGATGGAGCAGGATCCAGAGAGCACCCAATTTACCCAGACCCAGCGAGATTATCTCCTGCTGCATACTACGCCCAGAGGATGATCCAGTATCTCTCAAGGAGAGACAGTATTCGCCAGCGCTCCATGCGCTACCAACAGAATCGGCTTCGTTCTTCCACCTCCTCTTCTTCCTCAGACAACCAGGGTCCATCAGTAGAGGGAACCGACTTGGAATTTGAGGACTTTGA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAGACAACCAGGGTCCATCA
59.31
GCACCAGGGATCAGAACTGA
59.38
154
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GACAACCAGGGTCCATCAGT
59.31
GCACCAGGGATCAGAACTGA
59.38
152
PCR template sequence:
GCTACCAACAGAATCGGCTTCGTTCTTCCACCTCCTCTTCTTCCTCAGACAACCAGGGTCCATCAGTAGAGGGAACCGACTTGGAATTTGAGGACTTTGAATTTCCATGAGGACAGCTGACAAGGACCTGAATGGCCTCATTTTAGCTATTTCTGTGTGTGGAGCTATTGCTTGCTCCTTCAGTTCTGATCCCTGGTGCG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
17
Interacting miRNAs (#binding sites)
mmu-miR-370-3p(3), mmu-miR-296-5p(1), mmu-miR-429-3p(1), mmu-miR-200b-3p(1), mmu-miR-328-3p(1), mmu-miR-216a-5p(1), mmu-miR-7a-5p(1), mmu-miR-127-5p(1), mmu-miR-182-5p(1), mmu-miR-541-5p(1), mmu-miR-324-3p(1), mmu-miR-383-5p(1), mmu-miR-1187(1), mmu-miR-1198-5p(1), mmu-miR-3087-3p(1), mmu-miR-484(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
TTGAGGACTTTGAATTTCCATGAGGA
siRNA sets
CTCATGGAAATTCAAAGTC, TCATGGAAATTCAAAGTCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAMBRA1_2188_ORF_1
0.7398
0.192791908
0.999992654
2079
ORF sequence:
ATGAAAGTTGTCCCAGAGAAGAATGCTGTACGAATCCTCTGGGGCCGAGAACGGGGCACTCGTGCCATGGGTGCCCAGCGGCTTCTGCAGGAGCTGGTGGAGGATAAGACTCGATGGATGAAATGGGAGGGCAAGAGAGTAGAACTGCCTGATAGTCCACGCTCGACCTTCTTACTGGCCTTCAGCCCAGACAGGACTCTCTTGGCATCCACACATGTGAACCATAACATCTATATTACAGAGGTTAAGACTGGCAAGTGTGTTCACTCTCTGATCGGACACCGCCGTACTCCATGGTGTGTCACTTTTCACCCCACCATCTCAGGCCTTATTGCTTCTGGTTGCCTAGATGGGGAAGTTAGGATTTGGGATTTACATGGGGGCAGTGAAAGCTGGTTCACAGACAGCAACAATGCCATAGCCTCCTTGGCTTTCCACCCTACGGCTCAGCTTCTACTAATTGCCACTGCAAATGAGATCCATTTCTGGGATTGGAGTCGTCGGGAGCCCTTTGCTGTGGTGAAAACAGCCAGTGAGATGGAGCGTGTCCGCCTGGTGAGATTTGATCCACTTGGACACTACTTACTTACAGCTATTGTTAACCCTTCTAATCAGCAGGGTGATGACGAACCAGAAATCCCTATAGATGGAACAGAGTTATCTCATTACCGTCAACGTGCCCTCCTGCAATCACAGCCAGTTCGCCGGACACCTCTCCTCCACAATTTCCTGCACATGCTGTCCTCCCGTTCCTCTGGCATCCAGACCGAGCCCTTCCATCCCCCGGAGCAGGCTTCATCAACGCAGCAGGACCAGGGCCTCCTGAACCGGCCGTCTGCCTTCAGTACAGTCCAGAGCAGCACTGCGGGCAACACGCTCCGCAACCTCAGTCTGGGTCCTACCCGGCGCTCTTTGGGGGGCCCTTTGTCTAGCCACCCTTCTAGGTATCACAGAGAACTAGCCCCTGGGCTGACAGGTTCTGAGTGGACCCGGACAGTACTCACTCTGAACTCTCGTTCTGAGGTAGAATCTATGCCCCCACCGAGGACCAGTGCCTCCTCAGTGAGTTTGCTTTCTGTACTGAGACAGCAGGAAGGTGGCTCTCAGGCATCTGTGTATACTTCAGCCACAGAAGGGAGGGGTTTTCCATCATCAGGGTTGGCAACTGAGTCAGATGGAGGGAATGGTTCCAGCCAAAACAACTCAGGCAGCATTCGCCATGAGCTTCAATGTGACCTGAGACGCTTCTTTTTGGAGTATGACAGGCTGCAGGAGCTGGATCAGAGCCTGAGTGGGGAAACTCCCCAGACCCAACAGGCCCAGGAAATGCTCAACAATAATATTGAATCTGAGAGACCAGGTCCTTCCCACCTGCCTACCCCACACAGCAGTGAGAACAACTCCAACCTGTCTCGGGGCCACCTTAATCGATGCCGTGCTTGCCATAATCTTCTAACCTTCAACAATGATACCCTTCGTTGGGAAAGAACCACACCTAACTACTCATCTGGTGAGGCTAGCTCTTCCTGGCACGTCTCCACTACCTTTGAGGGCATGCCACCAAGTGGCAACCAGCTACCACCTCTTGAGCGGACTGAGGGCCAAATGCCTAGCTCCAGCAGGCTGGAGTTGAGCAGCTCTGCTAGTTCACAAGAGGAGAGGACTGTGGGGGTGGCCTTTAACCAGGAGACAGGCCACTGGGAACGCATTTATACCCAGTCCAGCAGATCTGGAACTGTATCACAGGAGGCCTTACATCAAGATATGCCTGAAGAAAGCTCTGAGGAAGACTCCCTCAGGAGGAGGCTGCTGGAGTCTTCCCTCATTTCATTATCCCGTTATGATGGAGCAGGATCCAGAGAGCACCCAATTTACCCAGACCCAGCGAGATTATCTCCTGCTGCATACTACGCCCAGAGGATGATCCAGTATCTCTCAAGGAGAGACAGTATTCGCCAGCGCTCCATGCGCTACCAACAGAATCGGCTTCGTTCTTCCACCTCCTCTTCTTCCTCAGACAACCAGGGTCCATCAGTAGAGGGAACCGACTTGGAATTTGAGGACTTTGAATTTCCATGA
Peptide sequence:
MKVVPEKNAVRILWGRERGTRAMGAQRLLQELVEDKTRWMKWEGKRVELPDSPRSTFLLAFSPDRTLLASTHVNHNIYITEVKTGKCVHSLIGHRRTPWCVTFHPTISGLIASGCLDGEVRIWDLHGGSESWFTDSNNAIASLAFHPTAQLLLIATANEIHFWDWSRREPFAVVKTASEMERVRLVRFDPLGHYLLTAIVNPSNQQGDDEPEIPIDGTELSHYRQRALLQSQPVRRTPLLHNFLHMLSSRSSGIQTEPFHPPEQASSTQQDQGLLNRPSAFSTVQSSTAGNTLRNLSLGPTRRSLGGPLSSHPSRYHRELAPGLTGSEWTRTVLTLNSRSEVESMPPPRTSASSVSLLSVLRQQEGGSQASVYTSATEGRGFPSSGLATESDGGNGSSQNNSGSIRHELQCDLRRFFLEYDRLQELDQSLSGETPQTQQAQEMLNNNIESERPGPSHLPTPHSSENNSNLSRGHLNRCRACHNLLTFNNDTLRWERTTPNYSSGEASSSWHVSTTFEGMPPSGNQLPPLERTEGQMPSSSRLELSSSASSQEERTVGVAFNQETGHWERIYTQSSRSGTVSQEALHQDMPEESSEEDSLRRRLLESSLISLSRYDGAGSREHPIYPDPARLSPAAYYAQRMIQYLSRRDSIRQRSMRYQQNRLRSSTSSSSSDNQGPSVEGTDLEFEDFEFP
IRESfinder result
IRESfinder score
0.586896595
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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