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mmu_circAp2b1_423
Basic information of circular RNA
PanCircBase ID:
mmu_circAp2b1_423
mm39_Chr. Position ID:
chr11|83256472|83260608|+
Gene name:
Ap2b1
Transcript:
ENSMUST00000018875.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
16,17,18
Exon/intron offsets:
0,2236,4006
Genomic length:
4136
Exon/intron sizes in nt:
14,71,46,130
Flanking exon/introns:
chr11:83255662-83256472|chr11:83260608-83280528
Splice length:
423
Other database IDs:
circBase: hsa_circ_0043133, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_20252
Human Ortholog IDs:
Mature spliced Sequence:
GTAGGACAGTCCTTCATCCCGTCATCAGTGCCTGCGACCTTCGCTCCTTCACCTACTCCTGCTGTGGTCAGCAGTGGTCTGAATGACCTGTTTGAGCTTTCCACTGGGATAGGCATGGCACCTGGCGGATATGTGGCTCCTAAGGCGGTCTGGCTACCTGCAGTAAAGGCTAAAGGCTTGGAGATTTCGGGGACGTTTACTCACCGCCAAGGGCATATCTATATGGAAATGAACTTCACCAACAAAGCTCTGCAGCATATGACAGACTTTGCCATCCAGTTTAACAAGAATAGCTTCGGTGTCATCCCAAGCACTCCCTTGGCCATACATACTCCACTGATGCCAAACCAGAGCATTGACGTCTCTCTGCCGCTCAACACCTTGGGCCCAGTCATGAAGATGGAGCCCCTGAATAACCTGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGCATTGACGTCTCTCTGCC
60.11
TTCAGACCACTGCTGACCAC
59.89
155
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCCAAACCAGAGCATTGACG
60.11
TTCAGACCACTGCTGACCAC
59.89
165
PCR template sequence:
CATACATACTCCACTGATGCCAAACCAGAGCATTGACGTCTCTCTGCCGCTCAACACCTTGGGCCCAGTCATGAAGATGGAGCCCCTGAATAACCTGCAGGTAGGACAGTCCTTCATCCCGTCATCAGTGCCTGCGACCTTCGCTCCTTCACCTACTCCTGCTGTGGTCAGCAGTGGTCTGAATGACCTGTTTGAGCTTT
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-221-3p(1), mmu-miR-29b-1-5p(1), mmu-miR-544-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GAATAACCTGCAGGTAGGACAGTCCT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAP2B1_423_ORF_1
1.2427
0.281580535
0.970163039
732
ORF sequence:
ATGGCACCTGGCGGATATGTGGCTCCTAAGGCGGTCTGGCTACCTGCAGTAAAGGCTAAAGGCTTGGAGATTTCGGGGACGTTTACTCACCGCCAAGGGCATATCTATATGGAAATGAACTTCACCAACAAAGCTCTGCAGCATATGACAGACTTTGCCATCCAGTTTAACAAGAATAGCTTCGGTGTCATCCCAAGCACTCCCTTGGCCATACATACTCCACTGATGCCAAACCAGAGCATTGACGTCTCTCTGCCGCTCAACACCTTGGGCCCAGTCATGAAGATGGAGCCCCTGAATAACCTGCAGGTAGGACAGTCCTTCATCCCGTCATCAGTGCCTGCGACCTTCGCTCCTTCACCTACTCCTGCTGTGGTCAGCAGTGGTCTGAATGACCTGTTTGAGCTTTCCACTGGGATAGGCATGGCACCTGGCGGATATGTGGCTCCTAAGGCGGTCTGGCTACCTGCAGTAAAGGCTAAAGGCTTGGAGATTTCGGGGACGTTTACTCACCGCCAAGGGCATATCTATATGGAAATGAACTTCACCAACAAAGCTCTGCAGCATATGACAGACTTTGCCATCCAGTTTAACAAGAATAGCTTCGGTGTCATCCCAAGCACTCCCTTGGCCATACATACTCCACTGATGCCAAACCAGAGCATTGACGTCTCTCTGCCGCTCAACACCTTGGGCCCAGTCATGAAGATGGAGCCCCTGAATAACCTGCAG
Peptide sequence:
MAPGGYVAPKAVWLPAVKAKGLEISGTFTHRQGHIYMEMNFTNKALQHMTDFAIQFNKNSFGVIPSTPLAIHTPLMPNQSIDVSLPLNTLGPVMKMEPLNNLQVGQSFIPSSVPATFAPSPTPAVVSSGLNDLFELSTGIGMAPGGYVAPKAVWLPAVKAKGLEISGTFTHRQGHIYMEMNFTNKALQHMTDFAIQFNKNSFGVIPSTPLAIHTPLMPNQSIDVSLPLNTLGPVMKMEPLNNLQ
IRESfinder result
IRESfinder score
0.525071756
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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