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mmu_circDop1b_1397
Basic information of circular RNA
PanCircBase ID:
mmu_circDop1b_1397
mm39_Chr. Position ID:
chr16|93557179|93562426|+
Gene name:
Dop1b
Transcript:
ENSMUST00000045004.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
13,14,15,16,17
Exon/intron offsets:
0,1741,2866,3600,5146
Genomic length:
5247
Exon/intron sizes in nt:
19,26,79,27,21,53,101
Flanking exon/introns:
chr16:93556617-93557179|chr16:93562426-93563013
Splice length:
1397
Other database IDs:
circAtlas: mmu-Dopey2_0030
Human Ortholog IDs:
Mature spliced Sequence:
GAACTCTACTCTGAGGTGCAGACTCAGTACCTCCCACAGGTGCTTGGCTGCCTGCTGCAGCCTCTTGCCGAGGAGGTGGAGGCCCTGAGCTTACCTGAGCTCACACACGCCTTGAAGACATGTTTCAAGGTGCTTAGCAAAGTCCAGATGCCGCCCTCCTACCTAGATCTGGAGCCCAGCAGCGGGAACTCGAGTCCAGTAAAAGGAAGAAACAGTGGCATCGCTATGGAAACGGAGGCCGTGGTGGCGGGTGATGAGGAACCTTCCTTTCCTCCACTGAAGTCTGAAGACAGTGGGATTGGGCTCAGCGCCTCGTCGCCAGAGCTCTCTGAGCACCTCAGGGTGCCTCGGGTGTCTGCGGAAAGAGACGACATCTGGAAGAAAGACGGGACCATGCAGGCGACATTTCTCTGCATCCAGGAGCTCATTGCAAACTTTGCCAGCAAGAACATCTTTGCAGCGTCGCTGACTGTGTCTGGGGAGGAAAACAAGCCCGAGGAGCCCCCAGGGAAGGGCAACAAGGGCCAGACACAGAGCACCGAGCACCCTGGCAGGAAGAGCTCCTGGGACCCTAAGCCCATCACCGTGCCCCAGTTTAAACAGATGCTTTCGGACTTGTTCACGGTTCGAGGGTCTCCCTTTAAGACAAGAAGCTCAGAGTCGCTGTCGTCTGTGCCCAGCAGCCCACACAGGAAGGCAGCAACCGAATGGGGTGTTGACCAGGTGGTCGTTGAGTTGGTGGGCTCCAAGGAAGACTGCAGGGAGGCCTTGGCTGCCGCCTGCCACCTGCTGCTGGACTGTGCCACCTTCCCTGTGTATCTGTCTGAGGAGGAGACTGAGCAGCTATGTGAGACGCTCTTCCAGACTCCAGGAGCCAGCGATTGCAGTTTTCCTCCGTGGCTGAAATCCCTCATGACAATTTGCTGCTGTGTGAGCGACTGCTCCCTCCAGAACATAGCCATCGCCACACTGCTGGAAGTGATAAACCACTCCCAGTCCCTCGCTCTTGTCATCGAAGACAAGATGAAGCGCTACAAAACCTCTGGGAACAACCCTTTTTTTGGCAAGTTACAGATGGTGACAGTCCCTCCCATTGCTCCTGGGATACTGAAAGTCATTGCCGAGAAAACAGACTTCTATCAGAGGGTGGCTCGTGTGCTCTGGAACCAGCTGAACAAGGAGACCCGTGAACATCACATCACCTGTGTAGAGCTGTTCTACCGCCTGCACTGCCTGGCCCCGACTGCCAACATCTGTGAGGATATCATCTGCCATGCCCTCCTGGACCCTGACAAGGGAACAAGGTTGGAAGCTCTGTTTAGGTTTTCTGTGATCTGGCACCTGACACGAGAAATCCAAGGTAGTCGTGTGACGTCCCACAATCGCTCCTTTGACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGATCTGGCACCTGACAC
59.96
TCAGGTAAGCTCAGGGCCTC
60.98
167
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGATCTGGCACCTGACAC
59.96
CTCAGGTAAGCTCAGGGCCT
60.98
168
PCR template sequence:
GAACAAGGTTGGAAGCTCTGTTTAGGTTTTCTGTGATCTGGCACCTGACACGAGAAATCCAAGGTAGTCGTGTGACGTCCCACAATCGCTCCTTTGACAGGAACTCTACTCTGAGGTGCAGACTCAGTACCTCCCACAGGTGCTTGGCTGCCTGCTGCAGCCTCTTGCCGAGGAGGTGGAGGCCCTGAGCTTACCTGAGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
19
Interacting miRNAs (#binding sites)
mmu-miR-214-3p(2), mmu-miR-140-5p(1), mmu-miR-34c-5p(1), mmu-miR-31-5p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-152-3p(1), mmu-miR-328-3p(1), mmu-miR-149-5p(1), mmu-miR-351-5p(1), mmu-miR-382-5p(1), mmu-miR-705(1), mmu-miR-27a-5p(1), mmu-miR-680(1), mmu-miR-342-3p(1), mmu-miR-377-3p(1), mmu-miR-539-5p(1), mmu-miR-452-3p(1), mmu-miR-7a-2-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GCTCCTTTGACAGGAACTCTACTCTG
siRNA sets
GTAGAGTTCCTGTCAAAGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDOP1B_1397_ORF_1
0.9977
0.2942488
0.999392444
1338
ORF sequence:
ATGCCGCCCTCCTACCTAGATCTGGAGCCCAGCAGCGGGAACTCGAGTCCAGTAAAAGGAAGAAACAGTGGCATCGCTATGGAAACGGAGGCCGTGGTGGCGGGTGATGAGGAACCTTCCTTTCCTCCACTGAAGTCTGAAGACAGTGGGATTGGGCTCAGCGCCTCGTCGCCAGAGCTCTCTGAGCACCTCAGGGTGCCTCGGGTGTCTGCGGAAAGAGACGACATCTGGAAGAAAGACGGGACCATGCAGGCGACATTTCTCTGCATCCAGGAGCTCATTGCAAACTTTGCCAGCAAGAACATCTTTGCAGCGTCGCTGACTGTGTCTGGGGAGGAAAACAAGCCCGAGGAGCCCCCAGGGAAGGGCAACAAGGGCCAGACACAGAGCACCGAGCACCCTGGCAGGAAGAGCTCCTGGGACCCTAAGCCCATCACCGTGCCCCAGTTTAAACAGATGCTTTCGGACTTGTTCACGGTTCGAGGGTCTCCCTTTAAGACAAGAAGCTCAGAGTCGCTGTCGTCTGTGCCCAGCAGCCCACACAGGAAGGCAGCAACCGAATGGGGTGTTGACCAGGTGGTCGTTGAGTTGGTGGGCTCCAAGGAAGACTGCAGGGAGGCCTTGGCTGCCGCCTGCCACCTGCTGCTGGACTGTGCCACCTTCCCTGTGTATCTGTCTGAGGAGGAGACTGAGCAGCTATGTGAGACGCTCTTCCAGACTCCAGGAGCCAGCGATTGCAGTTTTCCTCCGTGGCTGAAATCCCTCATGACAATTTGCTGCTGTGTGAGCGACTGCTCCCTCCAGAACATAGCCATCGCCACACTGCTGGAAGTGATAAACCACTCCCAGTCCCTCGCTCTTGTCATCGAAGACAAGATGAAGCGCTACAAAACCTCTGGGAACAACCCTTTTTTTGGCAAGTTACAGATGGTGACAGTCCCTCCCATTGCTCCTGGGATACTGAAAGTCATTGCCGAGAAAACAGACTTCTATCAGAGGGTGGCTCGTGTGCTCTGGAACCAGCTGAACAAGGAGACCCGTGAACATCACATCACCTGTGTAGAGCTGTTCTACCGCCTGCACTGCCTGGCCCCGACTGCCAACATCTGTGAGGATATCATCTGCCATGCCCTCCTGGACCCTGACAAGGGAACAAGGTTGGAAGCTCTGTTTAGGTTTTCTGTGATCTGGCACCTGACACGAGAAATCCAAGGTAGTCGTGTGACGTCCCACAATCGCTCCTTTGACAGGAACTCTACTCTGAGGTGCAGACTCAGTACCTCCCACAGGTGCTTGGCTGCCTGCTGCAGCCTCTTGCCGAGGAGGTGGAGGCCCTGA
Peptide sequence:
MPPSYLDLEPSSGNSSPVKGRNSGIAMETEAVVAGDEEPSFPPLKSEDSGIGLSASSPELSEHLRVPRVSAERDDIWKKDGTMQATFLCIQELIANFASKNIFAASLTVSGEENKPEEPPGKGNKGQTQSTEHPGRKSSWDPKPITVPQFKQMLSDLFTVRGSPFKTRSSESLSSVPSSPHRKAATEWGVDQVVVELVGSKEDCREALAAACHLLLDCATFPVYLSEEETEQLCETLFQTPGASDCSFPPWLKSLMTICCCVSDCSLQNIAIATLLEVINHSQSLALVIEDKMKRYKTSGNNPFFGKLQMVTVPPIAPGILKVIAEKTDFYQRVARVLWNQLNKETREHHITCVELFYRLHCLAPTANICEDIICHALLDPDKGTRLEALFRFSVIWHLTREIQGSRVTSHNRSFDRNSTLRCRLSTSHRCLAACCSLLPRRWRP
IRESfinder result
IRESfinder score
0.504274177
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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