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mmu_circAsb3_993
Basic information of circular RNA
PanCircBase ID:
mmu_circAsb3_993
mm39_Chr. Position ID:
chr11|30948312|31011586|+
Gene name:
Asb3
Transcript:
ENSMUST00000203878.3
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
2,3,4,5,6,7
Exon/intron offsets:
0,30595,57145,57789,60509,63076
Genomic length:
63274
Exon/intron sizes in nt:
2,09,15,91,13,13,61,78,000
Flanking exon/introns:
chr11:30835546-30948312|chr11:31011586-31031361
Splice length:
993
Other database IDs:
circBase: mmu_circ_0002976, CIRCpedia: MMU_CIRCpedia_40321, circAtlas: mmu-Asb3_0002
circBase: hsa_circ_0054530, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_41617
Human Ortholog IDs:
Mature spliced Sequence:
ACTGATCAAAAGGATGGATTTTACAGAGGCTTACTCAGACACGTGTTCTACGGTTGGACTTGCTGCCAGAGAAGGCAATGTTAAAATTCTAAGGAAATTGCTCAAAAAAGGCCGAAGTGTGGATGTCGCTGATAACAGGGGATGGATGCCGATTCATGAAGCAGCTTATCACAATGCTGTAGAGTGTTTGCAGATGCTAATTCATACAGATTCATCTGAAAACTACATTAAGGCAAAGACGTTTGAGGGCTTCTGTGCATTGCATCTTGCTGTGAGTCAAGGACATTGGAAAATCACACAGATTCTTTTGGAAGCTGGAGCTGATCCTAATGAAACCACTTTAGAAGAAACTACACCATTGTTTTTAGCTGTTGAAAGTGGACGGATAGATGTATTAAAGCTGTTGCTTCAACATGGAGCAAATGTCAATGGATCCCATTCTATGAGTGGATGGAATTCCTTGCACCAGGCTTCTTTCCAGGGAAATGCTGAGACTATAAGATTGCTTCTTAAACAAGGAGCAGACAGAGAATGCCAAGATGACTTTGGAATCACACCTCTGTTTGTGGCTGCTCAGTATGGGAAGCTAGAGAGCATGAGCATACTTATTTCATCTGGTGCAAATGTCAATTGCCAAGCCTTGGATAAAGCTACTCCTTTGTTTATTGCTGCACAAGAGGGTCATACAAAATGTGTGGAACTTTTGCTGTCCAGTGGGGCGGATCCTGACCTTTATTGTAATGAAGACAATTGGCAATTACCTATTCATGCTGCTGCACAAATGGGCCATACAGAGACCTTGGACTTGTTAATACCACGTACTAACCGGGCTTGTGACACTGGACCAGACAAAGTGAGCCCTGTTTATTCTGCAGTGTTTGGAGGACGGGAAGAGTGCCTGGAAATGTTACTGCAGAATGGCTATAGCCCAGATGCACAAATGTGCTTGGTATTTGGATTCAGTTCCCCTCTGTGCATGGCTTTCCAAAAGGA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTGCCTGGAAATGTTACTGCA
59.11
CTTCTCTGGCAGCAAGTCCA
59.96
173
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTGCCTGGAAATGTTACTGCAG
60.1
CTTCTCTGGCAGCAAGTCCA
59.96
173
PCR template sequence:
AGTGCCTGGAAATGTTACTGCAGAATGGCTATAGCCCAGATGCACAAATGTGCTTGGTATTTGGATTCAGTTCCCCTCTGTGCATGGCTTTCCAAAAGGAACTGATCAAAAGGATGGATTTTACAGAGGCTTACTCAGACACGTGTTCTACGGTTGGACTTGCTGCCAGAGAAGGCAATGTTAAAATTCTAAGGAAATTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
14
Interacting miRNAs (#binding sites)
mmu-miR-140-5p(1), mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-199a-5p(1), mmu-miR-103-3p(1), mmu-miR-31-5p(1), mmu-miR-29b-3p(1), mmu-miR-29a-3p(1), mmu-miR-29c-3p(1), mmu-miR-101b-3p(1), mmu-miR-182-5p(1), mmu-miR-107-3p(1), mmu-miR-29b-2-5p(1), mmu-miR-7a-2-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTTTCCAAAAGGAACTGATCAAAAGG
siRNA sets
TTTTGATCAGTTCCTTTTG, TTTGATCAGTTCCTTTTGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCASB3_993_ORF_1
1.0227
0.017086
0.999981645
1971
ORF sequence:
ATGGATTTTACAGAGGCTTACTCAGACACGTGTTCTACGGTTGGACTTGCTGCCAGAGAAGGCAATGTTAAAATTCTAAGGAAATTGCTCAAAAAAGGCCGAAGTGTGGATGTCGCTGATAACAGGGGATGGATGCCGATTCATGAAGCAGCTTATCACAATGCTGTAGAGTGTTTGCAGATGCTAATTCATACAGATTCATCTGAAAACTACATTAAGGCAAAGACGTTTGAGGGCTTCTGTGCATTGCATCTTGCTGTGAGTCAAGGACATTGGAAAATCACACAGATTCTTTTGGAAGCTGGAGCTGATCCTAATGAAACCACTTTAGAAGAAACTACACCATTGTTTTTAGCTGTTGAAAGTGGACGGATAGATGTATTAAAGCTGTTGCTTCAACATGGAGCAAATGTCAATGGATCCCATTCTATGAGTGGATGGAATTCCTTGCACCAGGCTTCTTTCCAGGGAAATGCTGAGACTATAAGATTGCTTCTTAAACAAGGAGCAGACAGAGAATGCCAAGATGACTTTGGAATCACACCTCTGTTTGTGGCTGCTCAGTATGGGAAGCTAGAGAGCATGAGCATACTTATTTCATCTGGTGCAAATGTCAATTGCCAAGCCTTGGATAAAGCTACTCCTTTGTTTATTGCTGCACAAGAGGGTCATACAAAATGTGTGGAACTTTTGCTGTCCAGTGGGGCGGATCCTGACCTTTATTGTAATGAAGACAATTGGCAATTACCTATTCATGCTGCTGCACAAATGGGCCATACAGAGACCTTGGACTTGTTAATACCACGTACTAACCGGGCTTGTGACACTGGACCAGACAAAGTGAGCCCTGTTTATTCTGCAGTGTTTGGAGGACGGGAAGAGTGCCTGGAAATGTTACTGCAGAATGGCTATAGCCCAGATGCACAAATGTGCTTGGTATTTGGATTCAGTTCCCCTCTGTGCATGGCTTTCCAAAAGGAACTGATCAAAAGGATGGATTTTACAGAGGCTTACTCAGACACGTGTTCTACGGTTGGACTTGCTGCCAGAGAAGGCAATGTTAAAATTCTAAGGAAATTGCTCAAAAAAGGCCGAAGTGTGGATGTCGCTGATAACAGGGGATGGATGCCGATTCATGAAGCAGCTTATCACAATGCTGTAGAGTGTTTGCAGATGCTAATTCATACAGATTCATCTGAAAACTACATTAAGGCAAAGACGTTTGAGGGCTTCTGTGCATTGCATCTTGCTGTGAGTCAAGGACATTGGAAAATCACACAGATTCTTTTGGAAGCTGGAGCTGATCCTAATGAAACCACTTTAGAAGAAACTACACCATTGTTTTTAGCTGTTGAAAGTGGACGGATAGATGTATTAAAGCTGTTGCTTCAACATGGAGCAAATGTCAATGGATCCCATTCTATGAGTGGATGGAATTCCTTGCACCAGGCTTCTTTCCAGGGAAATGCTGAGACTATAAGATTGCTTCTTAAACAAGGAGCAGACAGAGAATGCCAAGATGACTTTGGAATCACACCTCTGTTTGTGGCTGCTCAGTATGGGAAGCTAGAGAGCATGAGCATACTTATTTCATCTGGTGCAAATGTCAATTGCCAAGCCTTGGATAAAGCTACTCCTTTGTTTATTGCTGCACAAGAGGGTCATACAAAATGTGTGGAACTTTTGCTGTCCAGTGGGGCGGATCCTGACCTTTATTGTAATGAAGACAATTGGCAATTACCTATTCATGCTGCTGCACAAATGGGCCATACAGAGACCTTGGACTTGTTAATACCACGTACTAACCGGGCTTGTGACACTGGACCAGACAAAGTGAGCCCTGTTTATTCTGCAGTGTTTGGAGGACGGGAAGAGTGCCTGGAAATGTTACTGCAGAATGGCTATAGCCCAGATGCACAAATGTGCTTGGTATTTGGATTCAGTTCCCCTCTGTGCATGGCTTTCCAAAAG
Peptide sequence:
MDFTEAYSDTCSTVGLAAREGNVKILRKLLKKGRSVDVADNRGWMPIHEAAYHNAVECLQMLIHTDSSENYIKAKTFEGFCALHLAVSQGHWKITQILLEAGADPNETTLEETTPLFLAVESGRIDVLKLLLQHGANVNGSHSMSGWNSLHQASFQGNAETIRLLLKQGADRECQDDFGITPLFVAAQYGKLESMSILISSGANVNCQALDKATPLFIAAQEGHTKCVELLLSSGADPDLYCNEDNWQLPIHAAAQMGHTETLDLLIPRTNRACDTGPDKVSPVYSAVFGGREECLEMLLQNGYSPDAQMCLVFGFSSPLCMAFQKELIKRMDFTEAYSDTCSTVGLAAREGNVKILRKLLKKGRSVDVADNRGWMPIHEAAYHNAVECLQMLIHTDSSENYIKAKTFEGFCALHLAVSQGHWKITQILLEAGADPNETTLEETTPLFLAVESGRIDVLKLLLQHGANVNGSHSMSGWNSLHQASFQGNAETIRLLLKQGADRECQDDFGITPLFVAAQYGKLESMSILISSGANVNCQALDKATPLFIAAQEGHTKCVELLLSSGADPDLYCNEDNWQLPIHAAAQMGHTETLDLLIPRTNRACDTGPDKVSPVYSAVFGGREECLEMLLQNGYSPDAQMCLVFGFSSPLCMAFQK
IRESfinder result
IRESfinder score
0.581440216
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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