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mmu_circAtad2b_1663
Basic information of circular RNA
PanCircBase ID:
mmu_circAtad2b_1663
mm39_Chr. Position ID:
chr12|5011217|5068142|+
Gene name:
Atad2b
Transcript:
ENSMUST00000045664.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
13
Exon/intron indexes:
13,14,15,16,17,18,19,20,21,22,23,24,25
Exon/intron offsets:
0,4623,8134,12750,21215,21718,21901,24476,29670,45388,49035,52585,56765
Genomic length:
56925
Exon/intron sizes in nt:
8,91,60,91,29,72,91,01,00,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr12:5008231-5011217|chr12:5068142-5074581
Splice length:
1663
Other database IDs:
circBase: mmu_circ_0004018, CIRCpedia: MMU_CIRCpedia_21598, circAtlas: mmu-Atad2b_0057
Human Ortholog IDs:
Mature spliced Sequence:
GCATATTTGATGAGGCCTTCTATAATATTTTTTGATGAAATAGATGGCTTAGCTCCTGTTCGTTCTAGTAGACAAGATCAGATCCACAGCTCTATAGTGTCAACCCTCCTTGCCCTTATGGATGGATTAGATAATAGAGGTGAAATTGTTGTTATTGGTGCTACAAACAGACTTGACTCTATTGATCCTGCACTCAGGAGACCTGGTCGTTTTGACAGAGAATTTCTTTTCAACCTGCCTGATCAAAGGGCCAGAAAGCACATCTTGCAGATCCACACCAGGGACTGGAACCCAAAACTGTCTGATGCATTTTTAGGAGAATTGGCAGAAAAATGTGTTGGCTACTGTGGAGCTGACATCAAGGCCCTGTGTACAGAAGCCGCCCTGACTGCCCTGCGGAGGCGCTACCCTCAGATCTATGCCAGCAGCCACAAGCTGCAGCTGGATGTCACCTCAATAGTGCTCAGCGCCCACGACTTCTACCATGCCATGCAGAACATCGTGCCTGCTTCCCAACGTGCTGTGATGTCTTCAGGACAGGCGCTGTCCCCCATTATAAGGCCATTGCTAGAAAGAAGTTTCAACAACATCTTAGCAGTCCTGCAAAAAATATTTCCTCATGCAGAAACTAGCCAGAACTTTGTTGCTGGGAGTGATTTGAATTGTCCAAGCTTAGAAATTAGCAGTGATTATGAAGAGACCAGCATCCCTGAGGTAAAATCTTCTGGGAAGTGTTTTCTGGGAAAAAAGCTGTGTTCCAAAGATAGCCAAGGCAGTACCTTTGTACACTTAAACTTTAACATGGCCTTTGGACCAACCTCTTATAGGCCTCGATTGTTGCTATCTGGAGAACGAGGTTCAGGACAAACTTCGCACCTTGCTCCAGCACTTTTGCATACACTAGAAAGATTCTCTGTGCATCGGCTCGATCTCCCAGCACTTTACTCAGTCAGTGCCAAAACACCTGAAGAATCATGTGCACAGATATTTCGAGAAGCTCGAAGAACAGTACCGAGTATTGTTTACATGCCTCATATTGGTGACTGGTGGGATGCTGTCAGTGACACTGTGAGAGCAACTTTCTTGACATTGCTGCAGGATATACCGTCTTTTTCACCTATATTTTTATTGTCTACCTCTGAAACCATGTACAGTGAACTGCCTGAAGAGGTTAAATGTATCTTTAGAATACAGTATGAAGAGGTATTATATATTCAAAGACCTATTGAAGAAGATCGAAGAAAATTTTTCCAAGAACTTATTCTCCATCAGGCGTCAATGGCACCACCACGAAGGAAACATACTGCTCTTCGTGCTATGGAAGTGCTTCCGCTTGCACTACCATCACCTCCTCGTCAGTTATCAGAATCAGAAAAAAATCGGATGGAAGACCAGGAGGAAAATACGTTACGAGAGTTGCGGTTGTTCCTCAGGGACGTTACCAAGAGGCTGGCCACAGATAAACGCTTTAACATCTTCAGCAAACCGGTGGATATTGAAGAGGTTTCAGATTACCTTGAAGTAATCAAAGAACCAATGGATTTATCGACAGTAATAACTAAAATTGATAAACATAATTATCTAACGGCTAAAGATTTCCTGCAAGATATTGACCTCATCTGTAGCAATGCTTTAGAATACAACCCAGACAAGGACCCCGGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACGGCTAAAGATTTCCTGCA
57.51
AACGAACAGGAGCTAAGCCA
59.31
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACGGCTAAAGATTTCCTGCA
57.51
ACGAACAGGAGCTAAGCCAT
59.09
142
PCR template sequence:
ATTGATAAACATAATTATCTAACGGCTAAAGATTTCCTGCAAGATATTGACCTCATCTGTAGCAATGCTTTAGAATACAACCCAGACAAGGACCCCGGAGGCATATTTGATGAGGCCTTCTATAATATTTTTTGATGAAATAGATGGCTTAGCTCCTGTTCGTTCTAGTAGACAAGATCAGATCCACAGCTCTATAGTGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
23
Interacting miRNAs (#binding sites)
mmu-miR-93-5p(2), mmu-miR-106b-5p(2), mmu-miR-802-5p(2), mmu-miR-20b-5p(1), mmu-miR-106a-5p(1), mmu-miR-20a-5p(1), mmu-miR-17-5p(1), mmu-let-7e-5p(1), mmu-miR-30e-5p(1), mmu-miR-29b-3p(1), mmu-miR-29a-3p(1), mmu-miR-29c-3p(1), mmu-miR-30a-5p(1), mmu-miR-324-5p(1), mmu-miR-30d-5p(1), mmu-miR-351-5p(1), mmu-miR-199b-3p(1), mmu-miR-199a-3p(1), mmu-miR-384-3p(1), mmu-miR-29b-2-5p(1), mmu-miR-129-5p(1), mmu-miR-539-5p(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AAGGACCCCGGAGGCATATTTGATGA
siRNA sets
CATCAAATATGCCTCCGGG, TCATCAAATATGCCTCCGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATAD2B_1663_ORF_1
0.7548
0.078028269
0.999814118
1689
ORF sequence:
ATGAGGCCTTCTATAATATTTTTTGATGAAATAGATGGCTTAGCTCCTGTTCGTTCTAGTAGACAAGATCAGATCCACAGCTCTATAGTGTCAACCCTCCTTGCCCTTATGGATGGATTAGATAATAGAGGTGAAATTGTTGTTATTGGTGCTACAAACAGACTTGACTCTATTGATCCTGCACTCAGGAGACCTGGTCGTTTTGACAGAGAATTTCTTTTCAACCTGCCTGATCAAAGGGCCAGAAAGCACATCTTGCAGATCCACACCAGGGACTGGAACCCAAAACTGTCTGATGCATTTTTAGGAGAATTGGCAGAAAAATGTGTTGGCTACTGTGGAGCTGACATCAAGGCCCTGTGTACAGAAGCCGCCCTGACTGCCCTGCGGAGGCGCTACCCTCAGATCTATGCCAGCAGCCACAAGCTGCAGCTGGATGTCACCTCAATAGTGCTCAGCGCCCACGACTTCTACCATGCCATGCAGAACATCGTGCCTGCTTCCCAACGTGCTGTGATGTCTTCAGGACAGGCGCTGTCCCCCATTATAAGGCCATTGCTAGAAAGAAGTTTCAACAACATCTTAGCAGTCCTGCAAAAAATATTTCCTCATGCAGAAACTAGCCAGAACTTTGTTGCTGGGAGTGATTTGAATTGTCCAAGCTTAGAAATTAGCAGTGATTATGAAGAGACCAGCATCCCTGAGGTAAAATCTTCTGGGAAGTGTTTTCTGGGAAAAAAGCTGTGTTCCAAAGATAGCCAAGGCAGTACCTTTGTACACTTAAACTTTAACATGGCCTTTGGACCAACCTCTTATAGGCCTCGATTGTTGCTATCTGGAGAACGAGGTTCAGGACAAACTTCGCACCTTGCTCCAGCACTTTTGCATACACTAGAAAGATTCTCTGTGCATCGGCTCGATCTCCCAGCACTTTACTCAGTCAGTGCCAAAACACCTGAAGAATCATGTGCACAGATATTTCGAGAAGCTCGAAGAACAGTACCGAGTATTGTTTACATGCCTCATATTGGTGACTGGTGGGATGCTGTCAGTGACACTGTGAGAGCAACTTTCTTGACATTGCTGCAGGATATACCGTCTTTTTCACCTATATTTTTATTGTCTACCTCTGAAACCATGTACAGTGAACTGCCTGAAGAGGTTAAATGTATCTTTAGAATACAGTATGAAGAGGTATTATATATTCAAAGACCTATTGAAGAAGATCGAAGAAAATTTTTCCAAGAACTTATTCTCCATCAGGCGTCAATGGCACCACCACGAAGGAAACATACTGCTCTTCGTGCTATGGAAGTGCTTCCGCTTGCACTACCATCACCTCCTCGTCAGTTATCAGAATCAGAAAAAAATCGGATGGAAGACCAGGAGGAAAATACGTTACGAGAGTTGCGGTTGTTCCTCAGGGACGTTACCAAGAGGCTGGCCACAGATAAACGCTTTAACATCTTCAGCAAACCGGTGGATATTGAAGAGGTTTCAGATTACCTTGAAGTAATCAAAGAACCAATGGATTTATCGACAGTAATAACTAAAATTGATAAACATAATTATCTAACGGCTAAAGATTTCCTGCAAGATATTGACCTCATCTGTAGCAATGCTTTAGAATACAACCCAGACAAGGACCCCGGAGGCATATTTGATGAGGCCTTCTATAATATTTTTTGA
Peptide sequence:
MRPSIIFFDEIDGLAPVRSSRQDQIHSSIVSTLLALMDGLDNRGEIVVIGATNRLDSIDPALRRPGRFDREFLFNLPDQRARKHILQIHTRDWNPKLSDAFLGELAEKCVGYCGADIKALCTEAALTALRRRYPQIYASSHKLQLDVTSIVLSAHDFYHAMQNIVPASQRAVMSSGQALSPIIRPLLERSFNNILAVLQKIFPHAETSQNFVAGSDLNCPSLEISSDYEETSIPEVKSSGKCFLGKKLCSKDSQGSTFVHLNFNMAFGPTSYRPRLLLSGERGSGQTSHLAPALLHTLERFSVHRLDLPALYSVSAKTPEESCAQIFREARRTVPSIVYMPHIGDWWDAVSDTVRATFLTLLQDIPSFSPIFLLSTSETMYSELPEEVKCIFRIQYEEVLYIQRPIEEDRRKFFQELILHQASMAPPRRKHTALRAMEVLPLALPSPPRQLSESEKNRMEDQEENTLRELRLFLRDVTKRLATDKRFNIFSKPVDIEEVSDYLEVIKEPMDLSTVITKIDKHNYLTAKDFLQDIDLICSNALEYNPDKDPGGIFDEAFYNIF
IRESfinder result
IRESfinder score
0.667657151
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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