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mmu_circCep170_668
Basic information of circular RNA
PanCircBase ID:
mmu_circCep170_668
mm39_Chr. Position ID:
chr1|176607826|176621215|-
Gene name:
Cep170
Transcript:
ENSMUST00000057037.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
7,6,5,4,3,2
Exon/intron offsets:
0,1990,2236,8206,12275,13244
Genomic length:
13389
Exon/intron sizes in nt:
13,51,60,59,79,90,145
Flanking exon/introns:
chr1:176602476-176607826|chr1:176621215-176634564
Splice length:
668
Other database IDs:
circAtlas: mmu-Cep170_0015
circBase: hsa_circ_0009111, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_30913
Human Ortholog IDs:
Mature spliced Sequence:
GATAATGTAGCTTTGCTAAGGATTCAGAAGCTAAGCAGAAATGAGCCTAACATCCTGGTTTTTGGTGAGCAGTGGAGGCACTCGCCACAGGCTGCCACGAGAAATGATTTTCGTTGGAAGAGACGACTGTGAGCTCATGCTTCAGTCCCGAAGTGTGGATAAACAACATGCAGTAATCAATTATGATGCATCTATGGATGAACATTTGGTGAAAGATTTAGGCAGCCTAAATGGGACCTTTGTGAATGATGTAAGGATACCAGAGCAGACGTACATCACTTTGAAGCTTGAAGATAAGCTGAGATTTGGATATGATACAAATCTCTTCACTGTAGTACGAGGAGAAATGAGGGTCCCTGAAGAAGCTCTTAAGCACGAGAAGTTTACCATTCAGCTTCAATTGTCCCAGAAGTCTTCAGAATCAGAATTACCAAAATCAGCAAGTGCCAAAGGCACAGACTCAAAAGTGGAGGCTGCTGCAGAAGTGCAGCCCAGAGCCACAGAAGCACTGAAATCTGAAGAGAAACCCATGGATGTCTCTGCTATGCCCCGAGGCACTCCATTATATGGGCAGCCGTCCTGGTGGGGAGACGCCGAGGAGGATGAACAAAGAGCTTTCAAGGCCAATGGCAAGCCTGAGGGAAAAAGTCAGGAAGCTGGGGCTTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGCCGAGGAGGATGAACAAA
60.39
GCCTCCACTGCTCACCAAAA
60.82
156
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGCCGAGGAGGATGAACAAA
60.39
ACTGCTCACCAAAAACCAGGA
60.06
150
PCR template sequence:
GGGCAGCCGTCCTGGTGGGGAGACGCCGAGGAGGATGAACAAAGAGCTTTCAAGGCCAATGGCAAGCCTGAGGGAAAAAGTCAGGAAGCTGGGGCTTCAGGATAATGTAGCTTTGCTAAGGATTCAGAAGCTAAGCAGAAATGAGCCTAACATCCTGGTTTTTGGTGAGCAGTGGAGGCACTCGCCACAGGCTGCCACGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-375-3p(1), mmu-miR-221-3p(1), mmu-miR-216a-5p(1), mmu-miR-326-3p(1), mmu-miR-139-5p(1), mmu-miR-382-3p(1), mmu-miR-127-5p(1), mmu-miR-96-5p(1), mmu-miR-350-3p(1), mmu-miR-1904(1), mmu-miR-542-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GCTGGGGCTTCAGGATAATGTAGCTT
siRNA sets
CATTATCCTGAAGCCCCAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCEP170_668_ORF_1
0.8531
0.200570966
0.845546522
633
ORF sequence:
ATGAGCCTAACATCCTGGTTTTTGGTGAGCAGTGGAGGCACTCGCCACAGGCTGCCACGAGAAATGATTTTCGTTGGAAGAGACGACTGTGAGCTCATGCTTCAGTCCCGAAGTGTGGATAAACAACATGCAGTAATCAATTATGATGCATCTATGGATGAACATTTGGTGAAAGATTTAGGCAGCCTAAATGGGACCTTTGTGAATGATGTAAGGATACCAGAGCAGACGTACATCACTTTGAAGCTTGAAGATAAGCTGAGATTTGGATATGATACAAATCTCTTCACTGTAGTACGAGGAGAAATGAGGGTCCCTGAAGAAGCTCTTAAGCACGAGAAGTTTACCATTCAGCTTCAATTGTCCCAGAAGTCTTCAGAATCAGAATTACCAAAATCAGCAAGTGCCAAAGGCACAGACTCAAAAGTGGAGGCTGCTGCAGAAGTGCAGCCCAGAGCCACAGAAGCACTGAAATCTGAAGAGAAACCCATGGATGTCTCTGCTATGCCCCGAGGCACTCCATTATATGGGCAGCCGTCCTGGTGGGGAGACGCCGAGGAGGATGAACAAAGAGCTTTCAAGGCCAATGGCAAGCCTGAGGGAAAAAGTCAGGAAGCTGGGGCTTCAGGATAA
Peptide sequence:
MSLTSWFLVSSGGTRHRLPREMIFVGRDDCELMLQSRSVDKQHAVINYDASMDEHLVKDLGSLNGTFVNDVRIPEQTYITLKLEDKLRFGYDTNLFTVVRGEMRVPEEALKHEKFTIQLQLSQKSSESELPKSASAKGTDSKVEAAAEVQPRATEALKSEEKPMDVSAMPRGTPLYGQPSWWGDAEEDEQRAFKANGKPEGKSQEAGASG
IRESfinder result
IRESfinder score
0.46487782
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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