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mmu_circSelenoi_674
Basic information of circular RNA
PanCircBase ID:
mmu_circSelenoi_674
mm39_Chr. Position ID:
chr5|30452460|30468117|+
Gene name:
Selenoi
Transcript:
ENSMUST00000145167.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
2,3,4,5,6,7
Exon/intron offsets:
0,949,5247,8615,10249,15608
Genomic length:
15657
Exon/intron sizes in nt:
69,109,75,263,109,49
Flanking exon/introns:
chr5:30437813-30452460|chr5:30468117-30469272
Splice length:
674
Other database IDs:
circAtlas: mmu-Ept1_0004
circBase: hsa_circ_0006111, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_40541
Human Ortholog IDs:
Mature spliced Sequence:
TACAGCGCTTTGGATACCAACCCACTCTCTCTGTATATCATGCATCCATTTTGGAACACTATAGTGAAGGTGTTTCCTACTTGGCTGGCTCCCAATCTTATAACCTTTTCTGGCTTTATGCTGCTTGTGTTCAATTTCCTACTCCTGACATACTTCGACCCTGACTTCTATGCTTCAGCCCCTGGTCATAAGCATGTGCCTGACTGGGTTTGGATTGTCGTGGGCATCCTCAACTTTGCTGCCTACACTCTAGATGGAGTGGATGGAAAGCAAGCACGGAGAACCAATTCCAGCACCCCGTTAGGGGAGCTGTTTGACCATGGCCTGGACAGTTGGTCGTGTGTTTACTTTGTTGTGACTGTGTACTCCATCTTTGGACGAGGACCGACTGGCGTCAGTGTTTTTGTTCTTTATCTCCTGCTATGGGTAGTTTTGTTTTCTTTTATCCTGTCTCACTGGGAGAAGTATAACACAGGCGTTCTTTTCCTGCCATGGGGATATGACATTAGCCAAGTGACTATTTCTTTTGTCTACATAGTGACTGCGGTTGTGGGAGTTGAGGCCTGGTATGAACCTTTCCTGTTTAATTTCTTATATAGAGACCTATTCACTGCAATGATTATTGGGTGTGCATTATGTGTGACTCTTCCAATGAGTTTATTAAACTTTTTTAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGGTGTGCATTATGTGTGAC
58.84
GATTGGGAGCCAGCCAAGTA
59.74
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGGTGTGCATTATGTGTGAC
58.84
ATTGGGAGCCAGCCAAGTAG
59.74
147
PCR template sequence:
CTTTCCTGTTTAATTTCTTATATAGAGACCTATTCACTGCAATGATTATTGGGTGTGCATTATGTGTGACTCTTCCAATGAGTTTATTAAACTTTTTTAGTACAGCGCTTTGGATACCAACCCACTCTCTCTGTATATCATGCATCCATTTTGGAACACTATAGTGAAGGTGTTTCCTACTTGGCTGGCTCCCAATCTTA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-30e-5p(1), mmu-miR-30a-5p(1), mmu-miR-30c-5p(1), mmu-miR-30d-5p(1), mmu-miR-30b-5p(1), mmu-miR-153-3p(1), mmu-miR-483-5p(1), mmu-miR-342-3p(1), mmu-miR-377-3p(1), mmu-miR-3065-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TAAACTTTTTTAGTACAGCGCTTTGG
siRNA sets
AAAGCGCTGTACTAAAAAA, AAGCGCTGTACTAAAAAAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSELENOI_674_ORF_1
0.6757
-0.102107258
0.647636929
699
ORF sequence:
ATGCATCCATTTTGGAACACTATAGTGAAGGTGTTTCCTACTTGGCTGGCTCCCAATCTTATAACCTTTTCTGGCTTTATGCTGCTTGTGTTCAATTTCCTACTCCTGACATACTTCGACCCTGACTTCTATGCTTCAGCCCCTGGTCATAAGCATGTGCCTGACTGGGTTTGGATTGTCGTGGGCATCCTCAACTTTGCTGCCTACACTCTAGATGGAGTGGATGGAAAGCAAGCACGGAGAACCAATTCCAGCACCCCGTTAGGGGAGCTGTTTGACCATGGCCTGGACAGTTGGTCGTGTGTTTACTTTGTTGTGACTGTGTACTCCATCTTTGGACGAGGACCGACTGGCGTCAGTGTTTTTGTTCTTTATCTCCTGCTATGGGTAGTTTTGTTTTCTTTTATCCTGTCTCACTGGGAGAAGTATAACACAGGCGTTCTTTTCCTGCCATGGGGATATGACATTAGCCAAGTGACTATTTCTTTTGTCTACATAGTGACTGCGGTTGTGGGAGTTGAGGCCTGGTATGAACCTTTCCTGTTTAATTTCTTATATAGAGACCTATTCACTGCAATGATTATTGGGTGTGCATTATGTGTGACTCTTCCAATGAGTTTATTAAACTTTTTTAGTACAGCGCTTTGGATACCAACCCACTCTCTCTGTATATCATGCATCCATTTTGGAACACTATAG
Peptide sequence:
MHPFWNTIVKVFPTWLAPNLITFSGFMLLVFNFLLLTYFDPDFYASAPGHKHVPDWVWIVVGILNFAAYTLDGVDGKQARRTNSSTPLGELFDHGLDSWSCVYFVVTVYSIFGRGPTGVSVFVLYLLLWVVLFSFILSHWEKYNTGVLFLPWGYDISQVTISFVYIVTAVVGVEAWYEPFLFNFLYRDLFTAMIIGCALCVTLPMSLLNFFSTALWIPTHSLCISCIHFGTL
IRESfinder result
IRESfinder score
0.867032811
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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