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mmu_circBirc6_708
Basic information of circular RNA
PanCircBase ID:
mmu_circBirc6_708
mm39_Chr. Position ID:
chr17|74903851|74906962|+
Gene name:
Birc6
Transcript:
ENSMUST00000180037.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
15,16,17,18,19
Exon/intron offsets:
0,1182,2126,2380,3013
Genomic length:
3111
Exon/intron sizes in nt:
182,134,162,132,98
Flanking exon/introns:
chr17:74901996-74903851|chr17:74906962-74909959
Splice length:
708
Other database IDs:
circAtlas: mmu-Birc6_0032
circBase: hsa_circ_0005207, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_40828
Human Ortholog IDs:
Mature spliced Sequence:
GTATGGCAGGAGGGAAGTACCGTTCATTTTTAATTCATGTCAAAGCAGTGAGTGACCGAGGAGCAGCAGATGAGATGTGCAGCAGTGGCCTGCGTCCTGTTGTGAGGCTTCCATCTCTTAAACAGCAGGGTCACAAGGGATACTCACTGGCTTCTCTCTTGGCCAAAGTTGCAGCAGGCAAGGAAAAATCATCTAATGTTAAAAATGAAAATGCAGGAGGCACCCGAAAGTCTGAAAACCTGCGGGGTTGTGATTTACTTCAGGAGGTGTCTGTCACCATTCGGAGGTTTAAGAAAACCTCCATCTGTAAGGAAAGGGTTCAGCGTTGCGCCATGTTACAGTTTTCAGAATTTCATGAGAAGCTTCTTAACACGCTTTGTAGACGATCAGATGATGGGCAGGTCACAGAGCACGCCCAGAGTCTTGTGTTGGATGCTCTCTGCTGGTTAGCAGGAGTCCATTCAAATGGATCTGGCAGCTCAAAGGAAGGAAATGAGTGCCTACTTTCAAAAACACGGAAATGTCTTTCCGATATTGTCCGTGTATGCTTCTTTGAGGCAGGACGAAGTATAGCCCATAAATGTGCTCGGTTTCTAGCCTTGTGCATTAGTAATGGCAAATGCGAGCCCTGTCAGCCTGGATTTGGATCGGTTCTATTGAAGGCTTTACTTGATAATATGTGCTTTTTACCAGCAGCAGCAACTGGTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAGCCTGGATTTGGATCGGT
60.11
TGCACATCTCATCTGCTGCT
59.75
157
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAGCCTGGATTTGGATCGGT
60.11
TGCTGCACATCTCATCTGCT
59.75
160
PCR template sequence:
AGTAATGGCAAATGCGAGCCCTGTCAGCCTGGATTTGGATCGGTTCTATTGAAGGCTTTACTTGATAATATGTGCTTTTTACCAGCAGCAGCAACTGGTGGTATGGCAGGAGGGAAGTACCGTTCATTTTTAATTCATGTCAAAGCAGTGAGTGACCGAGGAGCAGCAGATGAGATGTGCAGCAGTGGCCTGCGTCCTGT
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-26a-5p(1), mmu-miR-26b-5p(1), mmu-miR-22-3p(1), mmu-miR-690(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GCAGCAACTGGTGGTATGGCAGGAGG
siRNA sets
CCATACCACCAGTTGCTGC, CTGCCATACCACCAGTTGC, TGCCATACCACCAGTTGCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBIRC6_708_ORF_1
0.6885
0.037456266
0.998263162
1413
ORF sequence:
ATGGCAGGAGGGAAGTACCGTTCATTTTTAATTCATGTCAAAGCAGTGAGTGACCGAGGAGCAGCAGATGAGATGTGCAGCAGTGGCCTGCGTCCTGTTGTGAGGCTTCCATCTCTTAAACAGCAGGGTCACAAGGGATACTCACTGGCTTCTCTCTTGGCCAAAGTTGCAGCAGGCAAGGAAAAATCATCTAATGTTAAAAATGAAAATGCAGGAGGCACCCGAAAGTCTGAAAACCTGCGGGGTTGTGATTTACTTCAGGAGGTGTCTGTCACCATTCGGAGGTTTAAGAAAACCTCCATCTGTAAGGAAAGGGTTCAGCGTTGCGCCATGTTACAGTTTTCAGAATTTCATGAGAAGCTTCTTAACACGCTTTGTAGACGATCAGATGATGGGCAGGTCACAGAGCACGCCCAGAGTCTTGTGTTGGATGCTCTCTGCTGGTTAGCAGGAGTCCATTCAAATGGATCTGGCAGCTCAAAGGAAGGAAATGAGTGCCTACTTTCAAAAACACGGAAATGTCTTTCCGATATTGTCCGTGTATGCTTCTTTGAGGCAGGACGAAGTATAGCCCATAAATGTGCTCGGTTTCTAGCCTTGTGCATTAGTAATGGCAAATGCGAGCCCTGTCAGCCTGGATTTGGATCGGTTCTATTGAAGGCTTTACTTGATAATATGTGCTTTTTACCAGCAGCAGCAACTGGTGGTATGGCAGGAGGGAAGTACCGTTCATTTTTAATTCATGTCAAAGCAGTGAGTGACCGAGGAGCAGCAGATGAGATGTGCAGCAGTGGCCTGCGTCCTGTTGTGAGGCTTCCATCTCTTAAACAGCAGGGTCACAAGGGATACTCACTGGCTTCTCTCTTGGCCAAAGTTGCAGCAGGCAAGGAAAAATCATCTAATGTTAAAAATGAAAATGCAGGAGGCACCCGAAAGTCTGAAAACCTGCGGGGTTGTGATTTACTTCAGGAGGTGTCTGTCACCATTCGGAGGTTTAAGAAAACCTCCATCTGTAAGGAAAGGGTTCAGCGTTGCGCCATGTTACAGTTTTCAGAATTTCATGAGAAGCTTCTTAACACGCTTTGTAGACGATCAGATGATGGGCAGGTCACAGAGCACGCCCAGAGTCTTGTGTTGGATGCTCTCTGCTGGTTAGCAGGAGTCCATTCAAATGGATCTGGCAGCTCAAAGGAAGGAAATGAGTGCCTACTTTCAAAAACACGGAAATGTCTTTCCGATATTGTCCGTGTATGCTTCTTTGAGGCAGGACGAAGTATAGCCCATAAATGTGCTCGGTTTCTAGCCTTGTGCATTAGTAATGGCAAATGCGAGCCCTGTCAGCCTGGATTTGGATCGGTTCTATTGAAGGCTTTACTTGATAATATGTGCTTTTTACCAGCAGCAGCAACTGGT
Peptide sequence:
MAGGKYRSFLIHVKAVSDRGAADEMCSSGLRPVVRLPSLKQQGHKGYSLASLLAKVAAGKEKSSNVKNENAGGTRKSENLRGCDLLQEVSVTIRRFKKTSICKERVQRCAMLQFSEFHEKLLNTLCRRSDDGQVTEHAQSLVLDALCWLAGVHSNGSGSSKEGNECLLSKTRKCLSDIVRVCFFEAGRSIAHKCARFLALCISNGKCEPCQPGFGSVLLKALLDNMCFLPAAATGGMAGGKYRSFLIHVKAVSDRGAADEMCSSGLRPVVRLPSLKQQGHKGYSLASLLAKVAAGKEKSSNVKNENAGGTRKSENLRGCDLLQEVSVTIRRFKKTSICKERVQRCAMLQFSEFHEKLLNTLCRRSDDGQVTEHAQSLVLDALCWLAGVHSNGSGSSKEGNECLLSKTRKCLSDIVRVCFFEAGRSIAHKCARFLALCISNGKCEPCQPGFGSVLLKALLDNMCFLPAAATG
IRESfinder result
IRESfinder score
0.669637957
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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