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mmu_circSanbr_579
Basic information of circular RNA
PanCircBase ID:
mmu_circSanbr_579
mm39_Chr. Position ID:
chr11|23567137|23575122|-
Gene name:
Sanbr
Transcript:
ENSMUST00000155903.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
7,6,5,4
Exon/intron offsets:
0,3091,5298,7798
Genomic length:
7985
Exon/intron sizes in nt:
5,92,39,94,187
Flanking exon/introns:
chr11:23565256-23567137|chr11:23575122-23578872
Splice length:
579
Other database IDs:
circAtlas: mmu-0610010F05Rik_0031
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
TGTGTGAAAAGGTTTGATGAGCTAAAGAGCTGTGGAAGTTCACCTGTTGACAACCAGTATAACCCTTTAATGGCTACTGGAGAGGGTCCTGTTGAAACTTTAGCCACTTACATTAAATCTTCACTTCTGGACACACAAGGAGATTTTCAAGAGACTCCTGTTGATCAAGATACAGTTTCTAAAGCAGGAAGACATAGTATAGCTACCACAAGGAATTGCTCTTCAGAAAGTGAAAACTGTACTGCTCGTAATGCTGGAGAAGAGACTGGAGAATCTGAAGGGCCAAACATGGTGATCCATGTATGTGATGAAGCAAAAAGCTTGAAAGAAGATTTTATTTGCCCACGAGATCTTTTGATATCAGAAATGAAGTACTTTGCTGAATATTTATCCATGGATGCGCAGCGCTGGGAAGAAGTGGACATTTCAGTTCATTGCGATGTTCACATTTTCAACTGGCTGATAAAATATGTTAAACGGAACACTAAGGAGAGTAAAGATTGTGAGATTCCCGCTTTAGAGCCAGGGAATGTCATTTCAATCCTTATTTCATCAGAGTTCTTGAAGATGGATTCACTA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCGCTTTAGAGCCAGGGAAT
59.82
TCAACAGGACCCTCTCCAGT
59.81
163
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATTCCCGCTTTAGAGCCAGG
59.82
TCAACAGGACCCTCTCCAGT
59.81
167
PCR template sequence:
GAACACTAAGGAGAGTAAAGATTGTGAGATTCCCGCTTTAGAGCCAGGGAATGTCATTTCAATCCTTATTTCATCAGAGTTCTTGAAGATGGATTCACTATGTGTGAAAAGGTTTGATGAGCTAAAGAGCTGTGGAAGTTCACCTGTTGACAACCAGTATAACCCTTTAATGGCTACTGGAGAGGGTCCTGTTGAAACTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-328-3p(1), mmu-miR-203-3p(1), mmu-miR-207(1), mmu-miR-669d-5p(1), mmu-miR-452-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GATGGATTCACTATGTGTGAAAAGGT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSANBR_579_ORF_1
0.9953
0.042093684
0.990160032
1089
ORF sequence:
ATGGCTACTGGAGAGGGTCCTGTTGAAACTTTAGCCACTTACATTAAATCTTCACTTCTGGACACACAAGGAGATTTTCAAGAGACTCCTGTTGATCAAGATACAGTTTCTAAAGCAGGAAGACATAGTATAGCTACCACAAGGAATTGCTCTTCAGAAAGTGAAAACTGTACTGCTCGTAATGCTGGAGAAGAGACTGGAGAATCTGAAGGGCCAAACATGGTGATCCATGTATGTGATGAAGCAAAAAGCTTGAAAGAAGATTTTATTTGCCCACGAGATCTTTTGATATCAGAAATGAAGTACTTTGCTGAATATTTATCCATGGATGCGCAGCGCTGGGAAGAAGTGGACATTTCAGTTCATTGCGATGTTCACATTTTCAACTGGCTGATAAAATATGTTAAACGGAACACTAAGGAGAGTAAAGATTGTGAGATTCCCGCTTTAGAGCCAGGGAATGTCATTTCAATCCTTATTTCATCAGAGTTCTTGAAGATGGATTCACTATGTGTGAAAAGGTTTGATGAGCTAAAGAGCTGTGGAAGTTCACCTGTTGACAACCAGTATAACCCTTTAATGGCTACTGGAGAGGGTCCTGTTGAAACTTTAGCCACTTACATTAAATCTTCACTTCTGGACACACAAGGAGATTTTCAAGAGACTCCTGTTGATCAAGATACAGTTTCTAAAGCAGGAAGACATAGTATAGCTACCACAAGGAATTGCTCTTCAGAAAGTGAAAACTGTACTGCTCGTAATGCTGGAGAAGAGACTGGAGAATCTGAAGGGCCAAACATGGTGATCCATGTATGTGATGAAGCAAAAAGCTTGAAAGAAGATTTTATTTGCCCACGAGATCTTTTGATATCAGAAATGAAGTACTTTGCTGAATATTTATCCATGGATGCGCAGCGCTGGGAAGAAGTGGACATTTCAGTTCATTGCGATGTTCACATTTTCAACTGGCTGATAAAATATGTTAAACGGAACACTAAGGAGAGTAAAGATTGTGAGATTCCCGCTTTAGAGCCAGGGAATGTCATTTCAATCCTTATTTCATCAGAGTTCTTGAAGATGGATTCACTA
Peptide sequence:
MATGEGPVETLATYIKSSLLDTQGDFQETPVDQDTVSKAGRHSIATTRNCSSESENCTARNAGEETGESEGPNMVIHVCDEAKSLKEDFICPRDLLISEMKYFAEYLSMDAQRWEEVDISVHCDVHIFNWLIKYVKRNTKESKDCEIPALEPGNVISILISSEFLKMDSLCVKRFDELKSCGSSPVDNQYNPLMATGEGPVETLATYIKSSLLDTQGDFQETPVDQDTVSKAGRHSIATTRNCSSESENCTARNAGEETGESEGPNMVIHVCDEAKSLKEDFICPRDLLISEMKYFAEYLSMDAQRWEEVDISVHCDVHIFNWLIKYVKRNTKESKDCEIPALEPGNVISILISSEFLKMDSL
IRESfinder result
IRESfinder score
0.717674874
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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