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mmu_circCcdc148_1101
Basic information of circular RNA
PanCircBase ID:
mmu_circCcdc148_1101
mm39_Chr. Position ID:
chr2|58824380|58899197|-
Gene name:
Ccdc148
Transcript:
ENSMUST00000226455.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
11,10,9,8,7,6,5,4
Exon/intron offsets:
0,46001,48500,67445,67704,68954,69613,74713
Genomic length:
74817
Exon/intron sizes in nt:
1,41,20,71,39,18,29,61,00,00,000
Flanking exon/introns:
chr2:58796485-58824380|chr2:58899197-58907527
Splice length:
1101
Other database IDs:
CIRCpedia: MMU_CIRCpedia_24325, circAtlas: mmu-Ccdc148_0007
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_163870
Human Ortholog IDs:
Mature spliced Sequence:
CTCCAAAAAGCCATAGAGACGTCAAGGGCTGCGAAAGAGCAGATGCTGATCAAGCAACACAAGCAGGTGTGGTGGCAGGAACAGGAGAGGCTGAAGGGGATCAGATGTAAATTGGAGTCTGAAATAAGATCTTGTCTCAATGAGGAGAGCATTGGGAGTGAATGTTTTTGTGAGCTTATGAATTTTGAGAAAGAGCTGTCAGAAGAGTGGTGTGCGTACCTTACAGCTGTCATTGATCCTATTCAGCAGCTGAGAACGGGCCTGAAGAGATGGTACCCCACTTCTCAGAGTGCACCCTGCCATGAGGGCTCAGACGCAACTGAGGTTCTGGAAGAGGTTGACTTTGTCAAGAAACAATCCAAGGCTGCCTTTGAAAGACTTCATCAGGAGCAATGGCACTTAGAGGAAGACCTTTTGGACTTGAGTGTGAAGTTACTAGATCACTCTTCAGAAGAAAAACCTAACTTGCTCAGCGAACAGCCCATGGAGTTAGTAACGTTGGACTGCCCATACCCAGATCTGAAATCGTCAATCCTTAACGAGTTCTGTAACTTTACAGAGAGATATCAAGAGAAACTTGAAGATTTTGATCTGCAATTAGAAGACATACGCAGTAACTTCCAACTAAGTGCAGAAGAGCACTGGACTTACCAGGCTGTCTTAGACCAGTATCCCGGAAATCTCCTTGGCAGAAGAGCTCTGTACTTGGACATGTTGCAAAGATATTTCCCTCACAAGTCCAGGCATCATTTGGTAGAACACGAGAAATACTGTGACCAGTATCACTTTGCTAGAGAGCAGAGAAGAATCCTGATAGACAATTGGAGCAGGAGCAGGAAAGACTTTATACAGAAAGCCATGCTGACTCTCCTCGAAGCCTGTGCAGCCCATGAAATGGGGAGCCTTCTGGCCAAGGACAGGAGACGGCAACAGGAACTATGTGCTGACCTGAAAGCCAAGGTTTCTCAATGGCGAGCCCAACAAGAAGAGCTATCAAGACTGGAAATGGAAATTTCAGCCAGAAGAAGAGAAAGGGAAGAAGAGAAAGAGAAATTGTGGAAAAAGAAGGAATTGCTACGAAGGGAGGAGACAGAGATTAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAGCCAGAAGAAGAGAAAGGGA
59.7
CACCTGCTTGTGTTGCTTGA
59.26
155
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCAGCCAGAAGAAGAGAAAGGG
59.7
CACCTGCTTGTGTTGCTTGA
59.26
156
PCR template sequence:
GGAAATGGAAATTTCAGCCAGAAGAAGAGAAAGGGAAGAAGAGAAAGAGAAATTGTGGAAAAAGAAGGAATTGCTACGAAGGGAGGAGACAGAGATTAAGCTCCAAAAAGCCATAGAGACGTCAAGGGCTGCGAAAGAGCAGATGCTGATCAAGCAACACAAGCAGGTGTGGTGGCAGGAACAGGAGAGGCTGAAGGGGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-135a-5p(2), mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-339-5p(1), mmu-miR-181b-5p(1), mmu-miR-382-3p(1), mmu-miR-669d-5p(1), mmu-miR-350-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GACAGAGATTAAGCTCCAAAAAGCCA
siRNA sets
CTTTTTGGAGCTTAATCTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCCDC148_1101_ORF_1
0.8461
0.14637056
0.999996139
2160
ORF sequence:
ATGCTGATCAAGCAACACAAGCAGGTGTGGTGGCAGGAACAGGAGAGGCTGAAGGGGATCAGATGTAAATTGGAGTCTGAAATAAGATCTTGTCTCAATGAGGAGAGCATTGGGAGTGAATGTTTTTGTGAGCTTATGAATTTTGAGAAAGAGCTGTCAGAAGAGTGGTGTGCGTACCTTACAGCTGTCATTGATCCTATTCAGCAGCTGAGAACGGGCCTGAAGAGATGGTACCCCACTTCTCAGAGTGCACCCTGCCATGAGGGCTCAGACGCAACTGAGGTTCTGGAAGAGGTTGACTTTGTCAAGAAACAATCCAAGGCTGCCTTTGAAAGACTTCATCAGGAGCAATGGCACTTAGAGGAAGACCTTTTGGACTTGAGTGTGAAGTTACTAGATCACTCTTCAGAAGAAAAACCTAACTTGCTCAGCGAACAGCCCATGGAGTTAGTAACGTTGGACTGCCCATACCCAGATCTGAAATCGTCAATCCTTAACGAGTTCTGTAACTTTACAGAGAGATATCAAGAGAAACTTGAAGATTTTGATCTGCAATTAGAAGACATACGCAGTAACTTCCAACTAAGTGCAGAAGAGCACTGGACTTACCAGGCTGTCTTAGACCAGTATCCCGGAAATCTCCTTGGCAGAAGAGCTCTGTACTTGGACATGTTGCAAAGATATTTCCCTCACAAGTCCAGGCATCATTTGGTAGAACACGAGAAATACTGTGACCAGTATCACTTTGCTAGAGAGCAGAGAAGAATCCTGATAGACAATTGGAGCAGGAGCAGGAAAGACTTTATACAGAAAGCCATGCTGACTCTCCTCGAAGCCTGTGCAGCCCATGAAATGGGGAGCCTTCTGGCCAAGGACAGGAGACGGCAACAGGAACTATGTGCTGACCTGAAAGCCAAGGTTTCTCAATGGCGAGCCCAACAAGAAGAGCTATCAAGACTGGAAATGGAAATTTCAGCCAGAAGAAGAGAAAGGGAAGAAGAGAAAGAGAAATTGTGGAAAAAGAAGGAATTGCTACGAAGGGAGGAGACAGAGATTAAGCTCCAAAAAGCCATAGAGACGTCAAGGGCTGCGAAAGAGCAGATGCTGATCAAGCAACACAAGCAGGTGTGGTGGCAGGAACAGGAGAGGCTGAAGGGGATCAGATGTAAATTGGAGTCTGAAATAAGATCTTGTCTCAATGAGGAGAGCATTGGGAGTGAATGTTTTTGTGAGCTTATGAATTTTGAGAAAGAGCTGTCAGAAGAGTGGTGTGCGTACCTTACAGCTGTCATTGATCCTATTCAGCAGCTGAGAACGGGCCTGAAGAGATGGTACCCCACTTCTCAGAGTGCACCCTGCCATGAGGGCTCAGACGCAACTGAGGTTCTGGAAGAGGTTGACTTTGTCAAGAAACAATCCAAGGCTGCCTTTGAAAGACTTCATCAGGAGCAATGGCACTTAGAGGAAGACCTTTTGGACTTGAGTGTGAAGTTACTAGATCACTCTTCAGAAGAAAAACCTAACTTGCTCAGCGAACAGCCCATGGAGTTAGTAACGTTGGACTGCCCATACCCAGATCTGAAATCGTCAATCCTTAACGAGTTCTGTAACTTTACAGAGAGATATCAAGAGAAACTTGAAGATTTTGATCTGCAATTAGAAGACATACGCAGTAACTTCCAACTAAGTGCAGAAGAGCACTGGACTTACCAGGCTGTCTTAGACCAGTATCCCGGAAATCTCCTTGGCAGAAGAGCTCTGTACTTGGACATGTTGCAAAGATATTTCCCTCACAAGTCCAGGCATCATTTGGTAGAACACGAGAAATACTGTGACCAGTATCACTTTGCTAGAGAGCAGAGAAGAATCCTGATAGACAATTGGAGCAGGAGCAGGAAAGACTTTATACAGAAAGCCATGCTGACTCTCCTCGAAGCCTGTGCAGCCCATGAAATGGGGAGCCTTCTGGCCAAGGACAGGAGACGGCAACAGGAACTATGTGCTGACCTGAAAGCCAAGGTTTCTCAATGGCGAGCCCAACAAGAAGAGCTATCAAGACTGGAAATGGAAATTTCAGCCAGAAGAAGAGAAAGGGAAGAAGAGAAAGAGAAATTGTGGAAAAAGAAGGAATTGCTACGAAGGGAGGAGACAGAGATTAAG
Peptide sequence:
MLIKQHKQVWWQEQERLKGIRCKLESEIRSCLNEESIGSECFCELMNFEKELSEEWCAYLTAVIDPIQQLRTGLKRWYPTSQSAPCHEGSDATEVLEEVDFVKKQSKAAFERLHQEQWHLEEDLLDLSVKLLDHSSEEKPNLLSEQPMELVTLDCPYPDLKSSILNEFCNFTERYQEKLEDFDLQLEDIRSNFQLSAEEHWTYQAVLDQYPGNLLGRRALYLDMLQRYFPHKSRHHLVEHEKYCDQYHFAREQRRILIDNWSRSRKDFIQKAMLTLLEACAAHEMGSLLAKDRRRQQELCADLKAKVSQWRAQQEELSRLEMEISARRREREEEKEKLWKKKELLRREETEIKLQKAIETSRAAKEQMLIKQHKQVWWQEQERLKGIRCKLESEIRSCLNEESIGSECFCELMNFEKELSEEWCAYLTAVIDPIQQLRTGLKRWYPTSQSAPCHEGSDATEVLEEVDFVKKQSKAAFERLHQEQWHLEEDLLDLSVKLLDHSSEEKPNLLSEQPMELVTLDCPYPDLKSSILNEFCNFTERYQEKLEDFDLQLEDIRSNFQLSAEEHWTYQAVLDQYPGNLLGRRALYLDMLQRYFPHKSRHHLVEHEKYCDQYHFAREQRRILIDNWSRSRKDFIQKAMLTLLEACAAHEMGSLLAKDRRRQQELCADLKAKVSQWRAQQEELSRLEMEISARRREREEEKEKLWKKKELLRREETEIK
IRESfinder result
IRESfinder score
0.538918904
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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