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mmu_circBaz2b_380
Basic information of circular RNA
PanCircBase ID:
mmu_circBaz2b_380
mm39_Chr. Position ID:
chr2|59831849|59909765|-
Gene name:
Baz2b
Transcript:
ENSMUST00000129124.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
5,4,3,2
Exon/intron offsets:
0,4537,75364,77776
Genomic length:
77916
Exon/intron sizes in nt:
5,11,47,42,140
Flanking exon/introns:
chr2:59814314-59831849|chr2:59909765-59920314
Splice length:
380
Other database IDs:
circAtlas: mmu-Baz2b_0048
Human Ortholog IDs:
Mature spliced Sequence:
AGAGAGAGATTGCATGATGTTCTCAGGGTACAGAGGAAGGCTGTCTGTGGGAGGACAGAGAGGAGTAACCAACACCAGCTTCATTCATCGCCCACCTCAGAATGGAGACAAACATGGACACCTGAAATTTGTTTCAAATGGTTTCCCAACAGTGATGTCACAAGATTGACCACACTGACACAATATGGAGTCTGGAGAACTGTTGCCATCCTCACCAGCCTCCTCCACTACACCAACATCATCTTCTGCTCCTTCCGTGGCTTCAGCAGTTTCAAAGAGCAGCCTTTCCACAGGAGCTGCTTCACTTAGTTCTACAGCCAGCCCATGTGTACTTGAAGCTGGGAAGTCCAAGATCAAGGTATCACCTGACTCAGTGTCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTTCTACAGCCAGCCCATGT
60.04
CTGAGGTGGGCGATGAATGA
59.82
172
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTCTACAGCCAGCCCATGTG
60.04
CTGAGGTGGGCGATGAATGA
59.82
171
PCR template sequence:
AGCCTTTCCACAGGAGCTGCTTCACTTAGTTCTACAGCCAGCCCATGTGTACTTGAAGCTGGGAAGTCCAAGATCAAGGTATCACCTGACTCAGTGTCTGAGAGAGAGATTGCATGATGTTCTCAGGGTACAGAGGAAGGCTGTCTGTGGGAGGACAGAGAGGAGTAACCAACACCAGCTTCATTCATCGCCCACCTCAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-125b-5p(1), mmu-miR-138-5p(1), mmu-miR-125a-5p(1), mmu-miR-188-3p(1), mmu-miR-7a-1-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GACTCAGTGTCTGAGAGAGAGATTGC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBAZ2B_380_ORF_1
1.1643
0.021379467
0.186762148
213
ORF sequence:
ATGGAGTCTGGAGAACTGTTGCCATCCTCACCAGCCTCCTCCACTACACCAACATCATCTTCTGCTCCTTCCGTGGCTTCAGCAGTTTCAAAGAGCAGCCTTTCCACAGGAGCTGCTTCACTTAGTTCTACAGCCAGCCCATGTGTACTTGAAGCTGGGAAGTCCAAGATCAAGGTATCACCTGACTCAGTGTCTGAGAGAGAGATTGCATGA
Peptide sequence:
MESGELLPSSPASSTTPTSSSAPSVASAVSKSSLSTGAASLSSTASPCVLEAGKSKIKVSPDSVSEREIA
IRESfinder result
IRESfinder score
0.777234682
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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