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mmu_circCpd_911
Basic information of circular RNA
PanCircBase ID:
mmu_circCpd_911
mm39_Chr. Position ID:
chr11|76703207|76731461|-
Gene name:
Cpd
Transcript:
ENSMUST00000021201.6
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
5,4,3,2
Exon/intron offsets:
0,1101,2389,28006
Genomic length:
28254
Exon/intron sizes in nt:
3,50,17,01,43,248
Flanking exon/introns:
chr11:76702712-76703207|chr11:76731461-76737049
Splice length:
911
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTTTGTGCTTTCTGGAAATCTTCATGGTGGCTCAGTGGTAGCAAGCTATCCTTTTGATGATTCTCCCGAGCATAAGACCACTGGACTCTATAGCAAAACCTCCGATGATGAAGTCTTTAGATACTTGGCAAAAGCTTATGCCTCTAACCACCCTATAATGAAAACTGGCGAACCCCATTGTCCAGGAGATGAAGACGAGACTTTCAAAGATGGGATCACGAATGGCGCGCACTGGTATGACGTGGAAGGTGGTATGCAAGATTACAATTATGTATGGGCCAACTGTTTTGAGATCACATTAGAATTGTCTTGCTGCAAGTACCCACCTGCTTCTCAGCTTCGACAAGAATGGGAGAATAATCGTGAGTCTTTGATCACATTGATTGAAAAGGTCCACATTGGAATTAAAGGATTTGTTAAAGATTCCGTAACAGGCTCTGGGTTAGAGAACGCAACCATTTCAGTGGCTGGTATTAATCATAACATCACAACGGGAAGATTTGGTGATTTCCACAGATTACTTGTTCCTGGAACTTACAATCTTACGGCGCTTTCAACTGGGTATATGCCATTGACCATTAATAATATAATGGTGAAAGAAGGGCCAGCTACAGAGATGGATTTCTCCCTTCGGCCAACTGTGATGTCAGTAATGCCTGGTTCAACTGAGGCTGTAACAACTCCTGGCACAGTTGCTGTTCCTAATATCCCTCCTGGAACACCATCCTCCCATCAGCCAATTCAGCCTAAAGACTTTCACCACCACCATTTTCCCGACATGGAAATCTTCTTGAGAAGATTTGCCAATGAATATCCTAATATCACCCGTCTTTATTCTCTGGGGAAATCCGTAGAGTCAAGAGAACTGTATGTGATGGAGATATCTGATAACCCAGGTGTCCATGAACCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACCCGTCTTTATTCTCTGGGG
59.16
CCAGTGGTCTTATGCTCGGG
60.18
172
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCTCTGGGGAAATCCGTAGAGT
60.02
CCAGTGGTCTTATGCTCGGG
60.18
160
PCR template sequence:
TATCCTAATATCACCCGTCTTTATTCTCTGGGGAAATCCGTAGAGTCAAGAGAACTGTATGTGATGGAGATATCTGATAACCCAGGTGTCCATGAACCAGGTTTGTGCTTTCTGGAAATCTTCATGGTGGCTCAGTGGTAGCAAGCTATCCTTTTGATGATTCTCCCGAGCATAAGACCACTGGACTCTATAGCAAAACC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-328-3p(1), mmu-miR-203-3p(1), mmu-miR-483-5p(1), mmu-miR-539-5p(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GTCCATGAACCAGGTTTGTGCTTTCT
siRNA sets
GAAAGCACAAACCTGGTTC, AAAGCACAAACCTGGTTCA, AAGCACAAACCTGGTTCAT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCPD_911_ORF_1
0.9132
0.071981428
0.92010768
795
ORF sequence:
ATGAAAACTGGCGAACCCCATTGTCCAGGAGATGAAGACGAGACTTTCAAAGATGGGATCACGAATGGCGCGCACTGGTATGACGTGGAAGGTGGTATGCAAGATTACAATTATGTATGGGCCAACTGTTTTGAGATCACATTAGAATTGTCTTGCTGCAAGTACCCACCTGCTTCTCAGCTTCGACAAGAATGGGAGAATAATCGTGAGTCTTTGATCACATTGATTGAAAAGGTCCACATTGGAATTAAAGGATTTGTTAAAGATTCCGTAACAGGCTCTGGGTTAGAGAACGCAACCATTTCAGTGGCTGGTATTAATCATAACATCACAACGGGAAGATTTGGTGATTTCCACAGATTACTTGTTCCTGGAACTTACAATCTTACGGCGCTTTCAACTGGGTATATGCCATTGACCATTAATAATATAATGGTGAAAGAAGGGCCAGCTACAGAGATGGATTTCTCCCTTCGGCCAACTGTGATGTCAGTAATGCCTGGTTCAACTGAGGCTGTAACAACTCCTGGCACAGTTGCTGTTCCTAATATCCCTCCTGGAACACCATCCTCCCATCAGCCAATTCAGCCTAAAGACTTTCACCACCACCATTTTCCCGACATGGAAATCTTCTTGAGAAGATTTGCCAATGAATATCCTAATATCACCCGTCTTTATTCTCTGGGGAAATCCGTAGAGTCAAGAGAACTGTATGTGATGGAGATATCTGATAACCCAGGTGTCCATGAACCAGGTTTGTGCTTTCTGGAAATCTTCATGGTGGCTCAGTGGTAG
Peptide sequence:
MKTGEPHCPGDEDETFKDGITNGAHWYDVEGGMQDYNYVWANCFEITLELSCCKYPPASQLRQEWENNRESLITLIEKVHIGIKGFVKDSVTGSGLENATISVAGINHNITTGRFGDFHRLLVPGTYNLTALSTGYMPLTINNIMVKEGPATEMDFSLRPTVMSVMPGSTEAVTTPGTVAVPNIPPGTPSSHQPIQPKDFHHHHFPDMEIFLRRFANEYPNITRLYSLGKSVESRELYVMEISDNPGVHEPGLCFLEIFMVAQW
IRESfinder result
IRESfinder score
0.628758421
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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