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mmu_circAtp11b_845
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp11b_845
mm39_Chr. Position ID:
chr3|35863505|35868374|+
Gene name:
Atp11b
Transcript:
ENSMUST00000200445.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
13,14,15,16,17,18
Exon/intron offsets:
0,764,1289,2706,2856,4687
Genomic length:
4869
Exon/intron sizes in nt:
2,40,17,66,97,41,04,180
Flanking exon/introns:
chr3:35861114-35863505|chr3:35868374-35874057
Splice length:
845
Other database IDs:
circAtlas: mmu-Atp11b_0008
circAtlas: hsa-ATP11B_0076, CIRCpedia: HSA_CIRCpedia_151110
Human Ortholog IDs:
Mature spliced Sequence:
GTGGAATATGTATTTACAGATAAAACTGGAACACTGACAGAAAATGAGATGCAGTTTCGAGAATGTTCAATTAATGGCCTGAAATACCAAGAAATCAATGGTAAACTTGTACCTGAAGGACCAAGCCCAGACTCCACAGAAGGAGAAGTGCCTTTCCTTGGTAGTTTATCCCATCTCAGCAACTCAGCCCATCTCACAGCCACTTCTCTTAGAACCAGTCCTGAAAGTGAAACTGAGCTAATCAAAGAACACGATCTGTTCTTTAAAGCAGTCAGTCTTTGCCATACTGTACAGATCAGCAATGTTCAAACTGACGGCATCGGGGATGGTCCCTGGCAGCCCAACCTGGCACCTGCACAGCTGGAGTACTATGCATCTTCACCAGATGAAAAGGCTCTGGTGGAAGCTGCGGCAAGAGCTGGTATTATATTTGTAGGCATTTCTGAAGAAACTATGGAGGTTAAAGTACTTGGGAGATTGGAAAGGTACAAATTGCTTCATATTCTGGAATTTGATTCAGATCGTAGGAGAATGAGTGTAATTGTTCAGGCACCTTCAGGTGAGAAGCTTTTATTTGCTAAAGGAGCAGAATCTTCAATTCTCCCTAAATGTATAGGTGGAGAAATAGCAAAAACCAGAATTCATGTTGATGAGTTTGCTTTGAAAGGACTGCGGACACTGTGTATAGCTTACAGACAGTTTACAGCTAAAGAGTATGAAGATGTAGACAGGCGCCTGTTTGAGGCCAGAACTGCCTTGCAGCATCGGGAAGAGAAATTGGCTGATGCCTTCCAGTACATTGAGAAAGACCTGATATTGCTAGGAGCTACAGCAGTGGAAGACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTTGCAGCATCGGGAAGAGA
60.11
ACATTCTCGAAACTGCATCTCA
58.07
156
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGCAGCATCGGGAAGAGAAA
59.68
ACATTCTCGAAACTGCATCTCA
58.07
154
PCR template sequence:
CCAGAACTGCCTTGCAGCATCGGGAAGAGAAATTGGCTGATGCCTTCCAGTACATTGAGAAAGACCTGATATTGCTAGGAGCTACAGCAGTGGAAGACAGGTGGAATATGTATTTACAGATAAAACTGGAACACTGACAGAAAATGAGATGCAGTTTCGAGAATGTTCAATTAATGGCCTGAAATACCAAGAAATCAATG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-223-3p(1), mmu-miR-128-3p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
CAGTGGAAGACAGGTGGAATATGTAT
siRNA sets
TATTCCACCTGTCTTCCAC, ATACATATTCCACCTGTCT, ATATTCCACCTGTCTTCCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATP11B_845_ORF_1
1.0306
0.068251667
0.949377749
834
ORF sequence:
ATGCAGTTTCGAGAATGTTCAATTAATGGCCTGAAATACCAAGAAATCAATGGTAAACTTGTACCTGAAGGACCAAGCCCAGACTCCACAGAAGGAGAAGTGCCTTTCCTTGGTAGTTTATCCCATCTCAGCAACTCAGCCCATCTCACAGCCACTTCTCTTAGAACCAGTCCTGAAAGTGAAACTGAGCTAATCAAAGAACACGATCTGTTCTTTAAAGCAGTCAGTCTTTGCCATACTGTACAGATCAGCAATGTTCAAACTGACGGCATCGGGGATGGTCCCTGGCAGCCCAACCTGGCACCTGCACAGCTGGAGTACTATGCATCTTCACCAGATGAAAAGGCTCTGGTGGAAGCTGCGGCAAGAGCTGGTATTATATTTGTAGGCATTTCTGAAGAAACTATGGAGGTTAAAGTACTTGGGAGATTGGAAAGGTACAAATTGCTTCATATTCTGGAATTTGATTCAGATCGTAGGAGAATGAGTGTAATTGTTCAGGCACCTTCAGGTGAGAAGCTTTTATTTGCTAAAGGAGCAGAATCTTCAATTCTCCCTAAATGTATAGGTGGAGAAATAGCAAAAACCAGAATTCATGTTGATGAGTTTGCTTTGAAAGGACTGCGGACACTGTGTATAGCTTACAGACAGTTTACAGCTAAAGAGTATGAAGATGTAGACAGGCGCCTGTTTGAGGCCAGAACTGCCTTGCAGCATCGGGAAGAGAAATTGGCTGATGCCTTCCAGTACATTGAGAAAGACCTGATATTGCTAGGAGCTACAGCAGTGGAAGACAGGTGGAATATGTATTTACAGATAAAACTGGAACACTGA
Peptide sequence:
MQFRECSINGLKYQEINGKLVPEGPSPDSTEGEVPFLGSLSHLSNSAHLTATSLRTSPESETELIKEHDLFFKAVSLCHTVQISNVQTDGIGDGPWQPNLAPAQLEYYASSPDEKALVEAAARAGIIFVGISEETMEVKVLGRLERYKLLHILEFDSDRRRMSVIVQAPSGEKLLFAKGAESSILPKCIGGEIAKTRIHVDEFALKGLRTLCIAYRQFTAKEYEDVDRRLFEARTALQHREEKLADAFQYIEKDLILLGATAVEDRWNMYLQIKLEH
IRESfinder result
IRESfinder score
0.693728841
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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