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mmu_circCntrob_938
Basic information of circular RNA
PanCircBase ID:
mmu_circCntrob_938
mm39_Chr. Position ID:
chr11|69205536|69212245|-
Gene name:
Cntrob
Transcript:
ENSMUST00000092973.6
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
9,8,7,6,5,4,3
Exon/intron offsets:
0,479,4235,4642,5147,6107,6645
Genomic length:
6709
Exon/intron sizes in nt:
147,237,99,117,117,157,64
Flanking exon/introns:
chr11:69202294-69205536|chr11:69212245-69212674
Splice length:
938
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GAACTGGTTCAGAGAGACGGGAAGAGGACTCCTTTGACAGTGATAGCACAGCTACCTTGCTCAACACCCGGCCTCTGCAAGACCTGTCTCCATCCAGCTCTGCCCCGGCACTGGAAGAGTTGTTTCCCCGCTACACTAGCCTTCGGCCCGGCCCCCCCACCAACCCCCCAGATTTTCAGGGGCTGAGGGATGCACTGGATGCAGAGCTTACACGCAGAAAGCATTGCGAGCGCCACATCCAGAGCCTACAGACTCGCGTGCTTGAGTTGCAACAACAGCTAGCTGTGGCTGTGGCTGCCGACCACAAGAAAGATCTCATGATTGAACAACTAGACAAGACTCTGGCTCGAGTGGTGGAAGGCTGGAATCGCCATGAGGCTGAGCGGACAGAGGTGCTGCGGGGACTTCAAGAGGAGCGCCAGGCAGCAGAACTCACCAGAAGCAAGCAGCAGGAGACAGTGACCCGCCTGGAACAAAGCCTTTCTGAGGCCATGGAAGCCCTGAGTCGGGAGCAGGAGGGTGCCAGACTACAGCAGAGGGAGAAAGAGGCCCTGGAAGAAGAAAGGCAAGCCCTGACTCTGAGGTTGGAGGTGGAGCAGCAGCAGTGCCGGACCCTCCAGGAAGAGCGGGATGAGGCTAGGGCTGGGCAGCTCAGTGAGCACCGGAAGCTGGAGGCCCTTCAAGTGGCTCTACAAGAGGAAAGGCAGGCCTGGATCAAGCAGGAACACCAGCTGAAGGAACGCCTTCAGGCACTGCAGGAGGAAGGCCAGGCTCAGCTGGAAAGAGAGAAGGGGAACAGCCAGAGGGAGGCCCAGGCAGCCTGGGAGACCCAGCAGCAGTTTGCACTGCTCCAGACTGAGGTGCGGCGGCTGGAAGGGGATCTGGACACAGTCCGGAGAGAGAGAGATGCACTGCAGCTGGAGATGAGCTTGGTCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGAAGGGGATCTGGACACA
60.18
GGAGACAGGTCTTGCAGAGG
59.75
159
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTGCACTGCTCCAGACTGAG
59.97
GTTGAGCAAGGTAGCTGTGC
59.48
163
PCR template sequence:
GTTTGCACTGCTCCAGACTGAGGTGCGGCGGCTGGAAGGGGATCTGGACACAGTCCGGAGAGAGAGAGATGCACTGCAGCTGGAGATGAGCTTGGTCCAGGAACTGGTTCAGAGAGACGGGAAGAGGACTCCTTTGACAGTGATAGCACAGCTACCTTGCTCAACACCCGGCCTCTGCAAGACCTGTCTCCATCCAGCTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-148b-3p(2), mmu-miR-138-5p(2), mmu-miR-148a-3p(1), mmu-miR-298-5p(1), mmu-miR-324-5p(1), mmu-miR-434-5p(1), mmu-miR-431-5p(1), mmu-miR-34b-5p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
GAGCTTGGTCCAGGAACTGGTTCAGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCNTROB_938_ORF_1
1.2139
0.393050694
0.987884281
807
ORF sequence:
ATGATTGAACAACTAGACAAGACTCTGGCTCGAGTGGTGGAAGGCTGGAATCGCCATGAGGCTGAGCGGACAGAGGTGCTGCGGGGACTTCAAGAGGAGCGCCAGGCAGCAGAACTCACCAGAAGCAAGCAGCAGGAGACAGTGACCCGCCTGGAACAAAGCCTTTCTGAGGCCATGGAAGCCCTGAGTCGGGAGCAGGAGGGTGCCAGACTACAGCAGAGGGAGAAAGAGGCCCTGGAAGAAGAAAGGCAAGCCCTGACTCTGAGGTTGGAGGTGGAGCAGCAGCAGTGCCGGACCCTCCAGGAAGAGCGGGATGAGGCTAGGGCTGGGCAGCTCAGTGAGCACCGGAAGCTGGAGGCCCTTCAAGTGGCTCTACAAGAGGAAAGGCAGGCCTGGATCAAGCAGGAACACCAGCTGAAGGAACGCCTTCAGGCACTGCAGGAGGAAGGCCAGGCTCAGCTGGAAAGAGAGAAGGGGAACAGCCAGAGGGAGGCCCAGGCAGCCTGGGAGACCCAGCAGCAGTTTGCACTGCTCCAGACTGAGGTGCGGCGGCTGGAAGGGGATCTGGACACAGTCCGGAGAGAGAGAGATGCACTGCAGCTGGAGATGAGCTTGGTCCAGGAACTGGTTCAGAGAGACGGGAAGAGGACTCCTTTGACAGTGATAGCACAGCTACCTTGCTCAACACCCGGCCTCTGCAAGACCTGTCTCCATCCAGCTCTGCCCCGGCACTGGAAGAGTTGTTTCCCCGCTACACTAGCCTTCGGCCCGGCCCCCCCACCAACCCCCCAGATTTTCAGGGGCTGA
Peptide sequence:
MIEQLDKTLARVVEGWNRHEAERTEVLRGLQEERQAAELTRSKQQETVTRLEQSLSEAMEALSREQEGARLQQREKEALEEERQALTLRLEVEQQQCRTLQEERDEARAGQLSEHRKLEALQVALQEERQAWIKQEHQLKERLQALQEEGQAQLEREKGNSQREAQAAWETQQQFALLQTEVRRLEGDLDTVRRERDALQLEMSLVQELVQRDGKRTPLTVIAQLPCSTPGLCKTCLHPALPRHWKSCFPATLAFGPAPPPTPQIFRG
IRESfinder result
IRESfinder score
0.288414918
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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