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mmu_circCep78_704
Basic information of circular RNA
PanCircBase ID:
mmu_circCep78_704
mm39_Chr. Position ID:
chr19|15952251|15959164|-
Gene name:
Cep78
Transcript:
ENSMUST00000235718.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
7,6,5,4,3,2
Exon/intron offsets:
0,1361,3893,6204,6577,6740
Genomic length:
6913
Exon/intron sizes in nt:
6,51,14,17,51,04,73,170
Flanking exon/introns:
chr19:15951831-15952251|chr19:15959164-15961976
Splice length:
704
Other database IDs:
CIRCpedia: MMU_CIRCpedia_223549, circAtlas: mmu-Cep78_0010
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GTGCTGATACACACCGAATTTGTAGGAATCGAGTTCCTGCAGTGAGATCCAAAGACATAAGCTTCCAGTTATGTAAGGCTCTTAGAGGCTGCTTAAGTGTATCAGGGGTGCTAAGAAATCTGGAGCTAAATGGGCTGATTCTGAGAGAGAGAGATTTGACTAGTCTAACAAAGGGACTGAGTAAATCAACCTCTTTGGTGCACTTGTCTCTTGCAAATTGTCCAATTGGAGATGGAGGTTTAGAAATTATTTGTCAAGGTATAAAGAACTCTGTCACTCTCAAGACCGTCAACTTTACAGGGTGTAATCTGACATGGCAAGGAGCCTGTCATATGGCCAAGATCTTAAAGTATCAAACCATGAGAAGGCATGAAGAAACCTGGGCGGAGAGCCTCCGCTACAGGAGACCCGATCTGGACTGCATGGCTGGCTTACGGCGCATCACACTGAACTGCAACACACTCATTGGTGACCAGGGTGCAAGTGCCTTTGCAGACTCTCTTAGTGAGGACCTGTGGCTTCGAGCACTCGACCTGCAGCAGTGCGGCCTCACCAGTGAAGGGGCCAAGGCTTTACTGGAGGCCCTGGAAACCAACAGAACCCTGGTCGTTCTGGATATAAGGAAAAACCCACTTATTGATCATTCTATGATGAAAGCAGTTATCAAAAAGGTCCTCCAGAACGGAAGGAGTGCAGACTCAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAAAAAGGTCCTCCAGAACGG
59.12
ACACTTAAGCAGCCTCTAAGAGC
60.37
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCAGTTATCAAAAAGGTCCTCCA
58.92
AAGCAGCCTCTAAGAGCCTT
58.72
142
PCR template sequence:
GGTCGTTCTGGATATAAGGAAAAACCCACTTATTGATCATTCTATGATGAAAGCAGTTATCAAAAAGGTCCTCCAGAACGGAAGGAGTGCAGACTCAGAGGTGCTGATACACACCGAATTTGTAGGAATCGAGTTCCTGCAGTGAGATCCAAAGACATAAGCTTCCAGTTATGTAAGGCTCTTAGAGGCTGCTTAAGTGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-10b-5p(1), mmu-miR-10a-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-574-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TGCAGACTCAGAGGTGCTGATACACA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCEP78_704_ORF_1
1.1154
0.292913224
0.732046549
417
ORF sequence:
ATGGCCAAGATCTTAAAGTATCAAACCATGAGAAGGCATGAAGAAACCTGGGCGGAGAGCCTCCGCTACAGGAGACCCGATCTGGACTGCATGGCTGGCTTACGGCGCATCACACTGAACTGCAACACACTCATTGGTGACCAGGGTGCAAGTGCCTTTGCAGACTCTCTTAGTGAGGACCTGTGGCTTCGAGCACTCGACCTGCAGCAGTGCGGCCTCACCAGTGAAGGGGCCAAGGCTTTACTGGAGGCCCTGGAAACCAACAGAACCCTGGTCGTTCTGGATATAAGGAAAAACCCACTTATTGATCATTCTATGATGAAAGCAGTTATCAAAAAGGTCCTCCAGAACGGAAGGAGTGCAGACTCAGAGGTGCTGATACACACCGAATTTGTAGGAATCGAGTTCCTGCAGTGA
Peptide sequence:
MAKILKYQTMRRHEETWAESLRYRRPDLDCMAGLRRITLNCNTLIGDQGASAFADSLSEDLWLRALDLQQCGLTSEGAKALLEALETNRTLVVLDIRKNPLIDHSMMKAVIKKVLQNGRSADSEVLIHTEFVGIEFLQ
IRESfinder result
IRESfinder score
0.520147862
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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