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mmu_circCcdc6_802
Basic information of circular RNA
PanCircBase ID:
mmu_circCcdc6_802
mm39_Chr. Position ID:
chr10|69978408|70018090|+
Gene name:
Ccdc6
Transcript:
ENSMUST00000147545.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
2,3,4,5,6,7
Exon/intron offsets:
0,12129,24423,26513,32432,39581
Genomic length:
39682
Exon/intron sizes in nt:
150,129,104,161,157,101
Flanking exon/introns:
chr10:69933411-69978408|chr10:70018090-70023520
Splice length:
802
Other database IDs:
CIRCpedia: MMU_CIRCpedia_27397, circAtlas: mmu-Ccdc6_0003
circBase: hsa_circ_0006246, circAtlas: hsa-CCDC6_0002, CIRCpedia: HSA_CIRCpedia_66989
Human Ortholog IDs:
Mature spliced Sequence:
CAAGCCAGGGCTGAGCAGGAAGAAGAATTCATCAGTAACACTTTATTCAAGAAAATCCAGGCCTTGCAGAAGGAGAAAGAAACCCTCGCCGTGAATTACGAGAAGGAAGAGGAGTTTCTCACCAATGAGCTCTCCCGGAAACTGATGCAGCTGCAGCATGAGAAGGCGGAGCTGGAACAACACCTGGAGCAGGAACAGGAGTTTCAGGTCAACAAGCTGATGAAGAAGATCAAAAAGCTGGAGAACGACACCATCTCCAAGCAACTCACCTTAGAGCAGCTGAGACGGGAGAAGATTGACCTGGAAAACACACTGGAGCAAGAGCAGGAGGCGCTGGTGAATCGGCTGTGGAAGAGGATGGATAAGCTGGAAGCTGAGAAGAGAATCCTACAGGAGAAATTAGACCAGCCTGTGTCTGCCCCACCATCGCCTAGAGACATCTCCATGGAGATCGATTCCCCCGAGAACATGATGAGGCATATCAGGTTTTTAAAGAACGAAGTGGAGCGACTGAAGAAGCAGCTACGAGCCGCCCAGTTACAACACTCGGAGAAGATGGCCCAGTACTTGGAGGAGGAGCGGCACATGAGGGAAGAGAACCTGCGGCTACAGCGGAAGCTCCAGAGGGAGATGGAGAGGAGGGAAGCGCTGTGTCGCCAGCTCTCGGAGAGCGAGTCCAGCCTGGAGATGGATGATGAGAGGTATTTTAATGAGATGTCTGCACAAGGATTGAGACCTCGCACTGTGTCCAGCCCAATCCCTTACACGCCTTCTCCCAGCTCAAGCAGACCTATATCACCCG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTGAGACCTCGCACTGTGTC
59.97
ATTCACGGCGAGGGTTTCTT
59.96
169
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTGAGACCTCGCACTGTGTC
59.97
AATTCACGGCGAGGGTTTCT
59.96
170
PCR template sequence:
TATTTTAATGAGATGTCTGCACAAGGATTGAGACCTCGCACTGTGTCCAGCCCAATCCCTTACACGCCTTCTCCCAGCTCAAGCAGACCTATATCACCCGCAAGCCAGGGCTGAGCAGGAAGAAGAATTCATCAGTAACACTTTATTCAAGAAAATCCAGGCCTTGCAGAAGGAGAAAGAAACCCTCGCCGTGAATTACG
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-128-3p(1), mmu-miR-541-5p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
CCTATATCACCCGCAAGCCAGGGCTG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCCDC6_802_ORF_1
1.2504
0.480318951
0.979324018
672
ORF sequence:
ATGCAGCTGCAGCATGAGAAGGCGGAGCTGGAACAACACCTGGAGCAGGAACAGGAGTTTCAGGTCAACAAGCTGATGAAGAAGATCAAAAAGCTGGAGAACGACACCATCTCCAAGCAACTCACCTTAGAGCAGCTGAGACGGGAGAAGATTGACCTGGAAAACACACTGGAGCAAGAGCAGGAGGCGCTGGTGAATCGGCTGTGGAAGAGGATGGATAAGCTGGAAGCTGAGAAGAGAATCCTACAGGAGAAATTAGACCAGCCTGTGTCTGCCCCACCATCGCCTAGAGACATCTCCATGGAGATCGATTCCCCCGAGAACATGATGAGGCATATCAGGTTTTTAAAGAACGAAGTGGAGCGACTGAAGAAGCAGCTACGAGCCGCCCAGTTACAACACTCGGAGAAGATGGCCCAGTACTTGGAGGAGGAGCGGCACATGAGGGAAGAGAACCTGCGGCTACAGCGGAAGCTCCAGAGGGAGATGGAGAGGAGGGAAGCGCTGTGTCGCCAGCTCTCGGAGAGCGAGTCCAGCCTGGAGATGGATGATGAGAGGTATTTTAATGAGATGTCTGCACAAGGATTGAGACCTCGCACTGTGTCCAGCCCAATCCCTTACACGCCTTCTCCCAGCTCAAGCAGACCTATATCACCCGCAAGCCAGGGCTGA
Peptide sequence:
MQLQHEKAELEQHLEQEQEFQVNKLMKKIKKLENDTISKQLTLEQLRREKIDLENTLEQEQEALVNRLWKRMDKLEAEKRILQEKLDQPVSAPPSPRDISMEIDSPENMMRHIRFLKNEVERLKKQLRAAQLQHSEKMAQYLEEERHMREENLRLQRKLQREMERREALCRQLSESESSLEMDDERYFNEMSAQGLRPRTVSSPIPYTPSPSSSRPISPASQG
IRESfinder result
IRESfinder score
0.327929226
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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