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mmu_circAtm_1065
Basic information of circular RNA
PanCircBase ID:
mmu_circAtm_1065
mm39_Chr. Position ID:
chr9|53395372|53402340|-
Gene name:
Atm
Transcript:
ENSMUST00000118282.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
33,32,31,30,29,28,27
Exon/intron offsets:
0,1936,2741,3833,4477,6038,6841
Genomic length:
6968
Exon/intron sizes in nt:
1,72,96,13,31,65,17,22,00,000
Flanking exon/introns:
chr9:53393743-53395372|chr9:53402340-53403540
Splice length:
1065
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GGATTTGGATCCTGCCCCCAACCCGCCATATTTCCCCTCACATGTCATTCAGGCAACGTTTGCTTACATCAGCAACTGTCATAAAACCAAGTTTAAAAGCATTCTAGAAATTCTTTCTAAAATCCCCGATTCCTATCAGAAAATACTTCTGGCCATTTGTGAACAAGCAGCTGAGACAAATAATGTCTTTAAAAAGCACAGAATTCTTAAAATATATCACCTGTTTGTTAGTTTATTACTGAAAGATATACAGAGTGGCCTGGGAGGGGCTTGGGCCTTTGTCCTTCGCGATGTTATTTATACTCTGATTCACTACATCAACAAAAGGTCTTCTCATTTCACAGATGTGTCGTTGCGTAGCTTTTCCCTTTGCTGTGACCTATTAAGTCGAGTTTGTCATACAGCTGTAACTCAATGTAAGGATGCTCTAGAAAGCCATCTTCACGTTATCGTTGGCACACTTATTCCCCTTGTGGATTATCAGGAAGTTCAAGAACAGGTATTGGACCTGTTGAAGTACTTAGTGATAGATAACAAAGACAATAAAAACCTCTCTGTCACAATTAAGCTTTTGGATCCCTTTCCTGACCATGTTATTTTTAAGGACTTGCGTCTTACTCAACAGAAAATCAAATATAGTGGAGGACCTTTTTCACTCTTAGAGGAAATAAACCATTTTCTCTCAGTAAGTGCTTACAATCCACTTCCGCTGACCAGGCTTGAAGGACTGAAGGATCTTCGAAGACAACTGGAGCAACATAAAGATCAGATGCTAGATCTTCTGAGAGCGTCTCAAGATAACCCACAAGATGGCATTGTGGTGAAGCTAGTTGTCAGCTTGTTGCAGTTATCCAAGATGGCAGTGAACCAGACTGGTGAAAGAGAAGTTTTAGAGGCTGTCGGAAGGTGTTTGGGAGAAATAGGTCCTCTGGATTTCTCCACCATAGCTGTCCAGCATAACAAAGATGTGTCCTATACCAAAGCCTACGGGTTACCTGAAGACAGAGAACTTCAGTGGACCTTGATAATGCTGACTGCCCTCAACAATACCCTGGTAGAGGACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACCAAAGCCTACGGGTTACC
59.67
TGCCTGAATGACATGTGAGGG
60.34
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACCAAAGCCTACGGGTTACC
59.67
GCCTGAATGACATGTGAGGG
58.61
143
PCR template sequence:
ATGTGTCCTATACCAAAGCCTACGGGTTACCTGAAGACAGAGAACTTCAGTGGACCTTGATAATGCTGACTGCCCTCAACAATACCCTGGTAGAGGACAGGGATTTGGATCCTGCCCCCAACCCGCCATATTTCCCCTCACATGTCATTCAGGCAACGTTTGCTTACATCAGCAACTGTCATAAAACCAAGTTTAAAAGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-150-5p(1), mmu-miR-135a-5p(1), mmu-miR-203-3p(1), mmu-miR-495-3p(1), mmu-miR-434-5p(1), mmu-miR-3470b(1), mmu-miR-350-3p(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGGTAGAGGACAGGGATTTGGATCCT
siRNA sets
AAATCCCTGTCCTCTACCA,ATCCAAATCCCTGTCCTCT,CAAATCCCTGTCCTCTACC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATM_1065_ORF_1
1.0254
0.068139664
0.998770086
1359
ORF sequence:
ATGCTAGATCTTCTGAGAGCGTCTCAAGATAACCCACAAGATGGCATTGTGGTGAAGCTAGTTGTCAGCTTGTTGCAGTTATCCAAGATGGCAGTGAACCAGACTGGTGAAAGAGAAGTTTTAGAGGCTGTCGGAAGGTGTTTGGGAGAAATAGGTCCTCTGGATTTCTCCACCATAGCTGTCCAGCATAACAAAGATGTGTCCTATACCAAAGCCTACGGGTTACCTGAAGACAGAGAACTTCAGTGGACCTTGATAATGCTGACTGCCCTCAACAATACCCTGGTAGAGGACAGGGATTTGGATCCTGCCCCCAACCCGCCATATTTCCCCTCACATGTCATTCAGGCAACGTTTGCTTACATCAGCAACTGTCATAAAACCAAGTTTAAAAGCATTCTAGAAATTCTTTCTAAAATCCCCGATTCCTATCAGAAAATACTTCTGGCCATTTGTGAACAAGCAGCTGAGACAAATAATGTCTTTAAAAAGCACAGAATTCTTAAAATATATCACCTGTTTGTTAGTTTATTACTGAAAGATATACAGAGTGGCCTGGGAGGGGCTTGGGCCTTTGTCCTTCGCGATGTTATTTATACTCTGATTCACTACATCAACAAAAGGTCTTCTCATTTCACAGATGTGTCGTTGCGTAGCTTTTCCCTTTGCTGTGACCTATTAAGTCGAGTTTGTCATACAGCTGTAACTCAATGTAAGGATGCTCTAGAAAGCCATCTTCACGTTATCGTTGGCACACTTATTCCCCTTGTGGATTATCAGGAAGTTCAAGAACAGGTATTGGACCTGTTGAAGTACTTAGTGATAGATAACAAAGACAATAAAAACCTCTCTGTCACAATTAAGCTTTTGGATCCCTTTCCTGACCATGTTATTTTTAAGGACTTGCGTCTTACTCAACAGAAAATCAAATATAGTGGAGGACCTTTTTCACTCTTAGAGGAAATAAACCATTTTCTCTCAGTAAGTGCTTACAATCCACTTCCGCTGACCAGGCTTGAAGGACTGAAGGATCTTCGAAGACAACTGGAGCAACATAAAGATCAGATGCTAGATCTTCTGAGAGCGTCTCAAGATAACCCACAAGATGGCATTGTGGTGAAGCTAGTTGTCAGCTTGTTGCAGTTATCCAAGATGGCAGTGAACCAGACTGGTGAAAGAGAAGTTTTAGAGGCTGTCGGAAGGTGTTTGGGAGAAATAGGTCCTCTGGATTTCTCCACCATAGCTGTCCAGCATAACAAAGATGTGTCCTATACCAAAGCCTACGGGTTACCTGAAGACAGAGAACTTCAGTGGACCTTGATAATGCTGACTGCCCTCAACAATACCCTGGTAGAGGAC
Peptide sequence:
MLDLLRASQDNPQDGIVVKLVVSLLQLSKMAVNQTGEREVLEAVGRCLGEIGPLDFSTIAVQHNKDVSYTKAYGLPEDRELQWTLIMLTALNNTLVEDRDLDPAPNPPYFPSHVIQATFAYISNCHKTKFKSILEILSKIPDSYQKILLAICEQAAETNNVFKKHRILKIYHLFVSLLLKDIQSGLGGAWAFVLRDVIYTLIHYINKRSSHFTDVSLRSFSLCCDLLSRVCHTAVTQCKDALESHLHVIVGTLIPLVDYQEVQEQVLDLLKYLVIDNKDNKNLSVTIKLLDPFPDHVIFKDLRLTQQKIKYSGGPFSLLEEINHFLSVSAYNPLPLTRLEGLKDLRRQLEQHKDQMLDLLRASQDNPQDGIVVKLVVSLLQLSKMAVNQTGEREVLEAVGRCLGEIGPLDFSTIAVQHNKDVSYTKAYGLPEDRELQWTLIMLTALNNTLVED
IRESfinder result
IRESfinder score
0.771763655
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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