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mmu_circAtm_2058
Basic information of circular RNA
PanCircBase ID:
mmu_circAtm_2058
mm39_Chr. Position ID:
chr9|53410156|53427876|-
Gene name:
Atm
Transcript:
ENSMUST00000118282.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
13
Exon/intron indexes:
21,20,19,18,17,16,15,14,13,12,11,10,9
Exon/intron offsets:
0,265,1815,2063,4088,5089,7686,8921,11306,12847,14248,16301,17348
Genomic length:
17720
Exon/intron sizes in nt:
13,17,61,56,83,20,01,80,00,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr9:53408553-53410156|chr9:53427876-53429802
Splice length:
2058
Other database IDs:
circAtlas: mmu-Atm_0019
Human Ortholog IDs:
Mature spliced Sequence:
GCTACAGATTACAACCCGATTAATATCAAAATATCCTTCCAGTTTACCTAACTGTGAGCTGTCTCCATTAATACTGATACTGTACCAGCTTCTGCCTCAACAGCGACGTGGAGAACGCATCCCATATGTGTTACGATGCCTTAAGGAAGTTGCCTTATGTCAAGGCAAGAAATCAAACCTGGAAAGCTCTCAGAAGTCAGATTTATTGAAACTATGGATCAAAATTTGGTCTATTACCTTTCGTGGTATAAGTTCTGGACAAACACAAACTGAAAACTTTGGTTTACTTGAGGCCATCATTCAAGGTAGTTTAGTTGAACTTGACAGAGAATTCTGGAAGTTATTTACTGGCTCAGCCTGTAAACCTTCTAGTCCTTCAGTATGCTGCTTGACTTTGGCACTTAGCATCTGTGTAGTTCCAGATGCAATAAAAATGGGAACAGAACAAAGTGTGTGTGAAGCAAATAGAAGTTTTTCTGTAAAGGAGTCAATAATGAGGTGGCTCTTATTCTACCAGTTAGAGGATGACTTAGAAGACAGCACAGAGCTGCCTCCAATTCTTCAGAGTAATTTTCCTCATCTTGTAGTCGAAAAAATTCTTGTAAGTCTCACTATGAAAAACTCAAAAGCTGCAATGAAGTTTTTTCAAAGTGTGCCAGAATGTGAACAACACTGCGAAGATAAAGAAGAGCCTTCATTTTCAGAAGTAGAAGAACTGTTTCTTCAGACTACTTTTGACAAGATGGATTTTTTAACTACTGTCAAAGAGTATGCTGTAGAAAAATTTCAGTCTAGTGTTGGCTTCTCTGTCCAGCAAAATCTCAAGGAATCATTGGATCACTATCTTCTGGGATTATCAGAACAGCTTTTAAGTAATTACTCTTCTGAGATTACAAGTTCTGAAACCCTTGTCCGGTGTTCAAGTCTTTTGGTGGGTGTTCTTGGCTGCTATTGTTACATGGGTATAATAACTGAAGACGAAGCCCATAAATCAGAATTATTCCAGAAAGCCAAGTCTCTGATGCAATGTGCAGGAGAAAGTATCTCTCTGTTTAAAAATAAAACAAATGAGGAATCAAGAATTGGTTCATTGAGAAATGTGATGCATCTGTGTACAAGTTGCTTGTGTATACATACCAAGCATACGCCAAACAAGATTGCCTCTGGCTTTTTCCTACGATTATTAACATCAAAGCTTATGAATGACATTGCAGATATTTGTAAAAGTTTAGCATCCTGTACGAAAAAGCCATTGGATCACGGAGTACATCCAGGGGAAGATGATGAAGATGGTGGTGGTTGTGACAGTCTGATGGAGGCAGAGGGTCCATCGTCCACTGGTCTTTCTACTGCTTACCCCGCTAGTTCTGTGAGCGATGCAAATGATTATGGAGAGAACCAGAATGCTGTTGGTGCCATGAGTCCTTTAGCTGCCGACTACCTGTCCAAACAAGATCATCTTCTCTTAGACATGCTCAGGTTCTTAGGCCGATCTGTAACTGCATCTCAGAGCCATACTGTGTCGTTTAGAGGAGCTGACATTAGAAGAAAATTGTTACTGTTGCTTGATTCTAGCATACTCGATCTCATGAAGCCCCTCCACCTGCATATGTACTTAGTGCTCCTGAAGGATCTCCCTGGAAACGAGCACTCATTGCCAATGGAAGATGTTGTTGAACTTCTGCAACCATTATCCCTTGTGTGTTCTCTGCACCGACGTGACCAAGATGTCTGTAAAACGATTCTAAGCAATGTCCTTCATATAGTGACAAACCTAGGCCAGGGCAGTGTGGACATGGAGAGCACACGGATTGCTCAAGGACACTTCCTGACAGTGATGGGAGCATTTTGGCATTTGACAAAGGAAAAGAAATGTGTATTCTCTGTAAGAATGGCATTAGTAAAGTGTCTTCAAACATTGCTTGAGGCTGATCCATATTCCGAATGGGCAATTCTTAATGTAAAAGGACAAGACTTTCCTGTAAATGAAGCTTTTTCACAATTTCTTGCTGACGATCATCATCAAGTTCGGATGTTGGCTGCAGGGTCAGTCAACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATCATCAAGTTCGGATGTTGGC
59.32
TTGAGGCAGAAGCTGGTACA
58.94
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCTGACGATCATCATCAAGTTCG
60.06
TTGAGGCAGAAGCTGGTACA
58.94
150
PCR template sequence:
ATGTAAAAGGACAAGACTTTCCTGTAAATGAAGCTTTTTCACAATTTCTTGCTGACGATCATCATCAAGTTCGGATGTTGGCTGCAGGGTCAGTCAACAGGCTACAGATTACAACCCGATTAATATCAAAATATCCTTCCAGTTTACCTAACTGTGAGCTGTCTCCATTAATACTGATACTGTACCAGCTTCTGCCTCAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
30
Interacting miRNAs (#binding sites)
mmu-miR-23a-3p(2), mmu-miR-23b-3p(1), mmu-miR-155-5p(1), mmu-let-7a-5p(1), mmu-miR-15a-5p(1), mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-103-3p(1), mmu-let-7e-5p(1), mmu-miR-135a-5p(1), mmu-miR-26a-5p(1), mmu-let-7c-5p(1), mmu-miR-15b-5p(1), mmu-miR-335-5p(1), mmu-miR-216a-5p(1), mmu-miR-101b-3p(1), mmu-miR-709(1), mmu-miR-320-3p(1), mmu-miR-10b-5p(1), mmu-miR-10a-5p(1), mmu-miR-26b-5p(1), mmu-miR-411-3p(1), mmu-miR-96-5p(1), mmu-miR-182-5p(1), mmu-miR-183-5p(1), mmu-miR-297a-5p(1), mmu-miR-107-3p(1), mmu-miR-802-5p(1), mmu-miR-207(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GGTCAGTCAACAGGCTACAGATTACA
siRNA sets
TAATCTGTAGCCTGTTGAC,GTAATCTGTAGCCTGTTGA,AATCTGTAGCCTGTTGACT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATM_2058_ORF_1
0.8182
-0.029541546
1
3681
ORF sequence:
ATGGGAACAGAACAAAGTGTGTGTGAAGCAAATAGAAGTTTTTCTGTAAAGGAGTCAATAATGAGGTGGCTCTTATTCTACCAGTTAGAGGATGACTTAGAAGACAGCACAGAGCTGCCTCCAATTCTTCAGAGTAATTTTCCTCATCTTGTAGTCGAAAAAATTCTTGTAAGTCTCACTATGAAAAACTCAAAAGCTGCAATGAAGTTTTTTCAAAGTGTGCCAGAATGTGAACAACACTGCGAAGATAAAGAAGAGCCTTCATTTTCAGAAGTAGAAGAACTGTTTCTTCAGACTACTTTTGACAAGATGGATTTTTTAACTACTGTCAAAGAGTATGCTGTAGAAAAATTTCAGTCTAGTGTTGGCTTCTCTGTCCAGCAAAATCTCAAGGAATCATTGGATCACTATCTTCTGGGATTATCAGAACAGCTTTTAAGTAATTACTCTTCTGAGATTACAAGTTCTGAAACCCTTGTCCGGTGTTCAAGTCTTTTGGTGGGTGTTCTTGGCTGCTATTGTTACATGGGTATAATAACTGAAGACGAAGCCCATAAATCAGAATTATTCCAGAAAGCCAAGTCTCTGATGCAATGTGCAGGAGAAAGTATCTCTCTGTTTAAAAATAAAACAAATGAGGAATCAAGAATTGGTTCATTGAGAAATGTGATGCATCTGTGTACAAGTTGCTTGTGTATACATACCAAGCATACGCCAAACAAGATTGCCTCTGGCTTTTTCCTACGATTATTAACATCAAAGCTTATGAATGACATTGCAGATATTTGTAAAAGTTTAGCATCCTGTACGAAAAAGCCATTGGATCACGGAGTACATCCAGGGGAAGATGATGAAGATGGTGGTGGTTGTGACAGTCTGATGGAGGCAGAGGGTCCATCGTCCACTGGTCTTTCTACTGCTTACCCCGCTAGTTCTGTGAGCGATGCAAATGATTATGGAGAGAACCAGAATGCTGTTGGTGCCATGAGTCCTTTAGCTGCCGACTACCTGTCCAAACAAGATCATCTTCTCTTAGACATGCTCAGGTTCTTAGGCCGATCTGTAACTGCATCTCAGAGCCATACTGTGTCGTTTAGAGGAGCTGACATTAGAAGAAAATTGTTACTGTTGCTTGATTCTAGCATACTCGATCTCATGAAGCCCCTCCACCTGCATATGTACTTAGTGCTCCTGAAGGATCTCCCTGGAAACGAGCACTCATTGCCAATGGAAGATGTTGTTGAACTTCTGCAACCATTATCCCTTGTGTGTTCTCTGCACCGACGTGACCAAGATGTCTGTAAAACGATTCTAAGCAATGTCCTTCATATAGTGACAAACCTAGGCCAGGGCAGTGTGGACATGGAGAGCACACGGATTGCTCAAGGACACTTCCTGACAGTGATGGGAGCATTTTGGCATTTGACAAAGGAAAAGAAATGTGTATTCTCTGTAAGAATGGCATTAGTAAAGTGTCTTCAAACATTGCTTGAGGCTGATCCATATTCCGAATGGGCAATTCTTAATGTAAAAGGACAAGACTTTCCTGTAAATGAAGCTTTTTCACAATTTCTTGCTGACGATCATCATCAAGTTCGGATGTTGGCTGCAGGGTCAGTCAACAGGCTACAGATTACAACCCGATTAATATCAAAATATCCTTCCAGTTTACCTAACTGTGAGCTGTCTCCATTAATACTGATACTGTACCAGCTTCTGCCTCAACAGCGACGTGGAGAACGCATCCCATATGTGTTACGATGCCTTAAGGAAGTTGCCTTATGTCAAGGCAAGAAATCAAACCTGGAAAGCTCTCAGAAGTCAGATTTATTGAAACTATGGATCAAAATTTGGTCTATTACCTTTCGTGGTATAAGTTCTGGACAAACACAAACTGAAAACTTTGGTTTACTTGAGGCCATCATTCAAGGTAGTTTAGTTGAACTTGACAGAGAATTCTGGAAGTTATTTACTGGCTCAGCCTGTAAACCTTCTAGTCCTTCAGTATGCTGCTTGACTTTGGCACTTAGCATCTGTGTAGTTCCAGATGCAATAAAAATGGGAACAGAACAAAGTGTGTGTGAAGCAAATAGAAGTTTTTCTGTAAAGGAGTCAATAATGAGGTGGCTCTTATTCTACCAGTTAGAGGATGACTTAGAAGACAGCACAGAGCTGCCTCCAATTCTTCAGAGTAATTTTCCTCATCTTGTAGTCGAAAAAATTCTTGTAAGTCTCACTATGAAAAACTCAAAAGCTGCAATGAAGTTTTTTCAAAGTGTGCCAGAATGTGAACAACACTGCGAAGATAAAGAAGAGCCTTCATTTTCAGAAGTAGAAGAACTGTTTCTTCAGACTACTTTTGACAAGATGGATTTTTTAACTACTGTCAAAGAGTATGCTGTAGAAAAATTTCAGTCTAGTGTTGGCTTCTCTGTCCAGCAAAATCTCAAGGAATCATTGGATCACTATCTTCTGGGATTATCAGAACAGCTTTTAAGTAATTACTCTTCTGAGATTACAAGTTCTGAAACCCTTGTCCGGTGTTCAAGTCTTTTGGTGGGTGTTCTTGGCTGCTATTGTTACATGGGTATAATAACTGAAGACGAAGCCCATAAATCAGAATTATTCCAGAAAGCCAAGTCTCTGATGCAATGTGCAGGAGAAAGTATCTCTCTGTTTAAAAATAAAACAAATGAGGAATCAAGAATTGGTTCATTGAGAAATGTGATGCATCTGTGTACAAGTTGCTTGTGTATACATACCAAGCATACGCCAAACAAGATTGCCTCTGGCTTTTTCCTACGATTATTAACATCAAAGCTTATGAATGACATTGCAGATATTTGTAAAAGTTTAGCATCCTGTACGAAAAAGCCATTGGATCACGGAGTACATCCAGGGGAAGATGATGAAGATGGTGGTGGTTGTGACAGTCTGATGGAGGCAGAGGGTCCATCGTCCACTGGTCTTTCTACTGCTTACCCCGCTAGTTCTGTGAGCGATGCAAATGATTATGGAGAGAACCAGAATGCTGTTGGTGCCATGAGTCCTTTAGCTGCCGACTACCTGTCCAAACAAGATCATCTTCTCTTAGACATGCTCAGGTTCTTAGGCCGATCTGTAACTGCATCTCAGAGCCATACTGTGTCGTTTAGAGGAGCTGACATTAGAAGAAAATTGTTACTGTTGCTTGATTCTAGCATACTCGATCTCATGAAGCCCCTCCACCTGCATATGTACTTAGTGCTCCTGAAGGATCTCCCTGGAAACGAGCACTCATTGCCAATGGAAGATGTTGTTGAACTTCTGCAACCATTATCCCTTGTGTGTTCTCTGCACCGACGTGACCAAGATGTCTGTAAAACGATTCTAAGCAATGTCCTTCATATAGTGACAAACCTAGGCCAGGGCAGTGTGGACATGGAGAGCACACGGATTGCTCAAGGACACTTCCTGACAGTGATGGGAGCATTTTGGCATTTGACAAAGGAAAAGAAATGTGTATTCTCTGTAAGAATGGCATTAGTAAAGTGTCTTCAAACATTGCTTGAGGCTGATCCATATTCCGAATGGGCAATTCTTAATGTAAAAGGACAAGACTTTCCTGTAAATGAAGCTTTTTCACAATTTCTTGCTGACGATCATCATCAAGTTCGGATGTTGGCTGCAGGGTCAGTCAAC
Peptide sequence:
MGTEQSVCEANRSFSVKESIMRWLLFYQLEDDLEDSTELPPILQSNFPHLVVEKILVSLTMKNSKAAMKFFQSVPECEQHCEDKEEPSFSEVEELFLQTTFDKMDFLTTVKEYAVEKFQSSVGFSVQQNLKESLDHYLLGLSEQLLSNYSSEITSSETLVRCSSLLVGVLGCYCYMGIITEDEAHKSELFQKAKSLMQCAGESISLFKNKTNEESRIGSLRNVMHLCTSCLCIHTKHTPNKIASGFFLRLLTSKLMNDIADICKSLASCTKKPLDHGVHPGEDDEDGGGCDSLMEAEGPSSTGLSTAYPASSVSDANDYGENQNAVGAMSPLAADYLSKQDHLLLDMLRFLGRSVTASQSHTVSFRGADIRRKLLLLLDSSILDLMKPLHLHMYLVLLKDLPGNEHSLPMEDVVELLQPLSLVCSLHRRDQDVCKTILSNVLHIVTNLGQGSVDMESTRIAQGHFLTVMGAFWHLTKEKKCVFSVRMALVKCLQTLLEADPYSEWAILNVKGQDFPVNEAFSQFLADDHHQVRMLAAGSVNRLQITTRLISKYPSSLPNCELSPLILILYQLLPQQRRGERIPYVLRCLKEVALCQGKKSNLESSQKSDLLKLWIKIWSITFRGISSGQTQTENFGLLEAIIQGSLVELDREFWKLFTGSACKPSSPSVCCLTLALSICVVPDAIKMGTEQSVCEANRSFSVKESIMRWLLFYQLEDDLEDSTELPPILQSNFPHLVVEKILVSLTMKNSKAAMKFFQSVPECEQHCEDKEEPSFSEVEELFLQTTFDKMDFLTTVKEYAVEKFQSSVGFSVQQNLKESLDHYLLGLSEQLLSNYSSEITSSETLVRCSSLLVGVLGCYCYMGIITEDEAHKSELFQKAKSLMQCAGESISLFKNKTNEESRIGSLRNVMHLCTSCLCIHTKHTPNKIASGFFLRLLTSKLMNDIADICKSLASCTKKPLDHGVHPGEDDEDGGGCDSLMEAEGPSSTGLSTAYPASSVSDANDYGENQNAVGAMSPLAADYLSKQDHLLLDMLRFLGRSVTASQSHTVSFRGADIRRKLLLLLDSSILDLMKPLHLHMYLVLLKDLPGNEHSLPMEDVVELLQPLSLVCSLHRRDQDVCKTILSNVLHIVTNLGQGSVDMESTRIAQGHFLTVMGAFWHLTKEKKCVFSVRMALVKCLQTLLEADPYSEWAILNVKGQDFPVNEAFSQFLADDHHQVRMLAAGSVN
IRESfinder result
IRESfinder score
0.724013478
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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