top of page
mmu_circAtad1_793
Basic information of circular RNA
PanCircBase ID:
mmu_circAtad1_793
mm39_Chr. Position ID:
chr19|32664632|32684409|-
Gene name:
Atad1
Transcript:
ENSMUST00000235412.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
7,6,5,4,3,2
Exon/intron offsets:
0,8559,11207,14287,15307,19602
Genomic length:
19777
Exon/intron sizes in nt:
9,01,07,20,11,21,99,170
Flanking exon/introns:
chr19:32661452-32664632|chr19:32684409-32689665
Splice length:
793
Other database IDs:
circBase: mmu_circ_0007696, CIRCpedia: MMU_CIRCpedia_16613, circAtlas: mmu-Atad1_0008
circAtlas: hsa-ATAD1_0011
Human Ortholog IDs:
Mature spliced Sequence:
GTTAACAATCAAGATGGTACATGCTGAAGCCTTTTCTCGTCCATTGAGTCGGAATGAAGTTGTCGGTTTAATTTTCCGTTTAACAATATTTGGTGCAGTAACGTACTTCACTATTAAATGGATGGTAGATGCCATTGACCCCACCAGGAAGCAGAAGGTAGAAGCTCAGAAACAGGCGGAAAAACTGATGAAGCAAATTGGTGTGAAAAATGTGAAGCTTTCAGAATATGAAATGAGTATTGCTGCTCATCTAGTAGACCCTCTTAATATGCATGTTACTTGGAGTGATATAGCAGGTTTAGATGACGTCATTACAGATCTGAAAGACACAGTCATCTTACCTATCAAAAAGAAGCATTTGTTTGAGAATTCCAGACTACTGCAGCCTCCAAAAGGTGTTCTTCTGTATGGACCTCCAGGCTGTGGGAAAACATTAATTGCCAAAGCAACAGCCAAAGAAGCAGGCTGTCGGTTCATTAACCTCCAGCCTTCGACACTGACTGATAAGTGGTATGGAGAATCTCAAAAACTGGCTGCTGCTGTTTTCTCCCTTGCCATAAAGCTACAGCCTTCTATCATATTTATTGATGAAATAGACTCTTTCCTACGAAATCGTTCCAGTTCTGACCACGAAGCTACAGCGATGATGAAAGCTCAGTTTATGAGTCTCTGGGATGGACTGGACACTGATCACAGCTGCCAGGTTATAGTAATGGGAGCTACCAATCGCCCTCAAGACCTTGACTCCGCTATAATGCGAAGAATGCCTACACGATTTCATATTAACCAGCCT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTACCAATCGCCCTCAAGA
59.82
ACCGACAACTTCATTCCGACT
59.66
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAGCTACCAATCGCCCTCAA
59.82
ACCGACAACTTCATTCCGACT
59.66
144
PCR template sequence:
CAGCTGCCAGGTTATAGTAATGGGAGCTACCAATCGCCCTCAAGACCTTGACTCCGCTATAATGCGAAGAATGCCTACACGATTTCATATTAACCAGCCTGTTAACAATCAAGATGGTACATGCTGAAGCCTTTTCTCGTCCATTGAGTCGGAATGAAGTTGTCGGTTTAATTTTCCGTTTAACAATATTTGGTGCAGTA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-16-5p(2), mmu-miR-15a-5p(2), mmu-miR-322-5p(2), mmu-miR-15b-5p(1), mmu-miR-199b-3p(1), mmu-miR-182-5p(1), mmu-miR-199a-3p(1), mmu-miR-680(1), mmu-miR-335-3p(1), mmu-miR-540-3p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
TATTAACCAGCCTGTTAACAATCAAG
siRNA sets
TTGATTGTTAACAGGCTGG,TGATTGTTAACAGGCTGGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATAD1_793_ORF_1
0.9616
0.078361897
0.934135305
807
ORF sequence:
ATGGTACATGCTGAAGCCTTTTCTCGTCCATTGAGTCGGAATGAAGTTGTCGGTTTAATTTTCCGTTTAACAATATTTGGTGCAGTAACGTACTTCACTATTAAATGGATGGTAGATGCCATTGACCCCACCAGGAAGCAGAAGGTAGAAGCTCAGAAACAGGCGGAAAAACTGATGAAGCAAATTGGTGTGAAAAATGTGAAGCTTTCAGAATATGAAATGAGTATTGCTGCTCATCTAGTAGACCCTCTTAATATGCATGTTACTTGGAGTGATATAGCAGGTTTAGATGACGTCATTACAGATCTGAAAGACACAGTCATCTTACCTATCAAAAAGAAGCATTTGTTTGAGAATTCCAGACTACTGCAGCCTCCAAAAGGTGTTCTTCTGTATGGACCTCCAGGCTGTGGGAAAACATTAATTGCCAAAGCAACAGCCAAAGAAGCAGGCTGTCGGTTCATTAACCTCCAGCCTTCGACACTGACTGATAAGTGGTATGGAGAATCTCAAAAACTGGCTGCTGCTGTTTTCTCCCTTGCCATAAAGCTACAGCCTTCTATCATATTTATTGATGAAATAGACTCTTTCCTACGAAATCGTTCCAGTTCTGACCACGAAGCTACAGCGATGATGAAAGCTCAGTTTATGAGTCTCTGGGATGGACTGGACACTGATCACAGCTGCCAGGTTATAGTAATGGGAGCTACCAATCGCCCTCAAGACCTTGACTCCGCTATAATGCGAAGAATGCCTACACGATTTCATATTAACCAGCCTGTTAACAATCAAGATGGTACATGCTGA
Peptide sequence:
MVHAEAFSRPLSRNEVVGLIFRLTIFGAVTYFTIKWMVDAIDPTRKQKVEAQKQAEKLMKQIGVKNVKLSEYEMSIAAHLVDPLNMHVTWSDIAGLDDVITDLKDTVILPIKKKHLFENSRLLQPPKGVLLYGPPGCGKTLIAKATAKEAGCRFINLQPSTLTDKWYGESQKLAAAVFSLAIKLQPSIIFIDEIDSFLRNRSSSDHEATAMMKAQFMSLWDGLDTDHSCQVIVMGATNRPQDLDSAIMRRMPTRFHINQPVNNQDGTC
IRESfinder result
IRESfinder score
0.622436857
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page