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mmu_circSlc12a6_493
Basic information of circular RNA
PanCircBase ID:
mmu_circSlc12a6_493
mm39_Chr. Position ID:
chr2|112179620|112183405|+
Gene name:
Slc12a6
Transcript:
ENSMUST00000110991.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
15,16,17,18
Exon/intron offsets:
0,2003,3168,3616
Genomic length:
3785
Exon/intron sizes in nt:
99,12,01,05,169
Flanking exon/introns:
chr2:112177780-112179620|chr2:112183405-112184518
Splice length:
493
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTTTTTTCTCATGTGTTACCTCTTTGTGAACTTGGCTTGTGCCTTGCAAACATTGCTGCGAACCCCCAACTGGAGGCCTCGATTCCGCTATTATCACTGGGCCCTCTCTTTCATGGGAATGAGTATCTGTCTAGCTCTGATGTTCATTTCTTCTTGGTATTATGCCATTGTAGCTATGGTAATAGCTGGCATGATCTACAAGTACATTGAATATCAAGGGGCTGAGAAAGAATGGGGGGATGGTATCCGTGGGCTGTCGCTCAGTGCAGCCCGCTTCGCTTTGCTCCGTCTAGAGGAAGGACCTCCTCACACTAAAAACTGGAGGCCTCAGCTGCTCGTCCTACTGAAGCTGGATGAAGATTTACACGTCAAGCACCCTCGCCTCCTCACCTTTGCCTCCCAGCTCAAGGCAGGAAAGGGACTCACGATTGTGGGCTCTGTCATCGTGGGGAACTTCTTGGAGAACTATGGTGACGCGCTCGCGGCAGAGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTCACGATTGTGGGCTCTGT
60.04
AATAGCGGAATCGAGGCCTC
59.68
164
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCACGATTGTGGGCTCTGTC
60.04
AATAGCGGAATCGAGGCCTC
59.68
163
PCR template sequence:
TGCCTCCCAGCTCAAGGCAGGAAAGGGACTCACGATTGTGGGCTCTGTCATCGTGGGGAACTTCTTGGAGAACTATGGTGACGCGCTCGCGGCAGAGCAGGTTTTTTCTCATGTGTTACCTCTTTGTGAACTTGGCTTGTGCCTTGCAAACATTGCTGCGAACCCCCAACTGGAGGCCTCGATTCCGCTATTATCACTGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-211-5p(1), mmu-miR-709(1), mmu-miR-350-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CGCGGCAGAGCAGGTTTTTTCTCATG
siRNA sets
GAAAAAACCTGCTCTGCCG, AAAAACCTGCTCTGCCGCG, AGAAAAAACCTGCTCTGCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSLC12A6_493_ORF_1
0.876
0.086434768
0.847766366
693
ORF sequence:
ATGTGTTACCTCTTTGTGAACTTGGCTTGTGCCTTGCAAACATTGCTGCGAACCCCCAACTGGAGGCCTCGATTCCGCTATTATCACTGGGCCCTCTCTTTCATGGGAATGAGTATCTGTCTAGCTCTGATGTTCATTTCTTCTTGGTATTATGCCATTGTAGCTATGGTAATAGCTGGCATGATCTACAAGTACATTGAATATCAAGGGGCTGAGAAAGAATGGGGGGATGGTATCCGTGGGCTGTCGCTCAGTGCAGCCCGCTTCGCTTTGCTCCGTCTAGAGGAAGGACCTCCTCACACTAAAAACTGGAGGCCTCAGCTGCTCGTCCTACTGAAGCTGGATGAAGATTTACACGTCAAGCACCCTCGCCTCCTCACCTTTGCCTCCCAGCTCAAGGCAGGAAAGGGACTCACGATTGTGGGCTCTGTCATCGTGGGGAACTTCTTGGAGAACTATGGTGACGCGCTCGCGGCAGAGCAGGTTTTTTCTCATGTGTTACCTCTTTGTGAACTTGGCTTGTGCCTTGCAAACATTGCTGCGAACCCCCAACTGGAGGCCTCGATTCCGCTATTATCACTGGGCCCTCTCTTTCATGGGAATGAGTATCTGTCTAGCTCTGATGTTCATTTCTTCTTGGTATTATGCCATTGTAGCTATGGTAATAGCTGGCATGATCTACAAGTACATTGA
Peptide sequence:
MCYLFVNLACALQTLLRTPNWRPRFRYYHWALSFMGMSICLALMFISSWYYAIVAMVIAGMIYKYIEYQGAEKEWGDGIRGLSLSAARFALLRLEEGPPHTKNWRPQLLVLLKLDEDLHVKHPRLLTFASQLKAGKGLTIVGSVIVGNFLENYGDALAAEQVFSHVLPLCELGLCLANIAANPQLEASIPLLSLGPLFHGNEYLSSSDVHFFLVLCHCSYGNSWHDLQVH
IRESfinder result
IRESfinder score
0.686521284
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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