top of page
mmu_circBirc6_893
Basic information of circular RNA
PanCircBase ID:
mmu_circBirc6_893
mm39_Chr. Position ID:
chr17|74997352|75004514|+
Gene name:
Birc6
Transcript:
ENSMUST00000180037.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
67,68,69,70,71,72
Exon/intron offsets:
0,644,1826,3090,5879,7027
Genomic length:
7162
Exon/intron sizes in nt:
11,12,18,16,27,81,89,100
Flanking exon/introns:
chr17:74996358-74997352|chr17:75004514-75009198
Splice length:
893
Other database IDs:
circBase: hsa_circ_0119855, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_40944
Human Ortholog IDs:
Mature spliced Sequence:
AAAAAAAACTAGGTGAATACTCAAAGAAGGTGGTTATGAAACCCAAACCTCTGTCAGTATTAAAATCACTTGAAGAAAAATATGTGGCTGTCATGAAAAAACTGCAGTTTGATACATTTGAAATGGTTTCTGAAGATGACGATGGGAAATTGGGTTTTAAAGTAAATTACCACTACATGTCTCAGGTGAAAAATGCCAACGATGCCAACAGTGCTGCCAGAGCCCGCCGCCTGGCTCAAGAAGCGGTGACACTGTCAACCTCACTGCCTCTGTCATCGTCTTCCAGTGTCTTTGTACGCTGTGATGAGGAGCGACTTGACATCATGAAGGTTCTGATAACCGGGCCAGCGGACACCCCCTATGCAAATGGCTGCTTTGAGTTTGATGTATATTTTCCTCAAGATTATCCTAGCTCACCTCCTCTAGTGAACCTAGAAACAACTGGGGGTCATAGTGTGCGCTTCAATCCCAACCTTTACAATGATGGCAAGGTTTGTTTAAGCATCCTGAATACATGGCATGGAAGACCAGAAGAGAAGTGGAACCCTCAGACATCAAGCTTTTTGCAAGTGTTGGTTTCTGTCCAGTCCCTTATATTAGTAGCTGAGCCTTACTTCAATGAACCAGGATATGAACGGTCTAGAGGCACTCCCAGTGGTACACAGAGCTCTCGAGAATACGATGGGAACATCCGACAAGCAACGGTTAAATGGGCTATGCTAGAACAAATCAGAAATCCTTCACCGTGCTTTAAAGAAGTTATACACAAACATTTTTACTTGAAGAGAATTGAGCTCATGGCCCAGTGTGAGGAGTGGATTGCAGACATCCAGCAGTACAGCAGTGACAAGCGGGTGGGCAGGACCATGTCTCACCATGCAGCTGCTCTCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCCAGTGTGAGGAGTGGATT
59.01
ACTGACAGAGGTTTGGGTTTCA
59.76
150
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTGAGGAGTGGATTGCAGACA
60
ACTGACAGAGGTTTGGGTTTCA
59.76
144
PCR template sequence:
GCTCATGGCCCAGTGTGAGGAGTGGATTGCAGACATCCAGCAGTACAGCAGTGACAAGCGGGTGGGCAGGACCATGTCTCACCATGCAGCTGCTCTCAAGAAAAAAAACTAGGTGAATACTCAAAGAAGGTGGTTATGAAACCCAAACCTCTGTCAGTATTAAAATCACTTGAAGAAAAATATGTGGCTGTCATGAAAAA
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-let-7a-5p(1), mmu-let-7e-5p(1), mmu-let-7b-5p(1), mmu-miR-34c-5p(1), mmu-let-7c-5p(1), mmu-let-7d-5p(1), mmu-miR-433-3p(1), mmu-miR-541-5p(1), mmu-miR-335-3p(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGCTGCTCTCAAGAAAAAAAACTAGG
siRNA sets
TTTTTTTTCTTGAGAGCAG, TAGTTTTTTTTCTTGAGAG, TTTTTTTCTTGAGAGCAGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBIRC6_893_ORF_1
0.7715
0.146610218
0.953799957
870
ORF sequence:
ATGAAACCCAAACCTCTGTCAGTATTAAAATCACTTGAAGAAAAATATGTGGCTGTCATGAAAAAACTGCAGTTTGATACATTTGAAATGGTTTCTGAAGATGACGATGGGAAATTGGGTTTTAAAGTAAATTACCACTACATGTCTCAGGTGAAAAATGCCAACGATGCCAACAGTGCTGCCAGAGCCCGCCGCCTGGCTCAAGAAGCGGTGACACTGTCAACCTCACTGCCTCTGTCATCGTCTTCCAGTGTCTTTGTACGCTGTGATGAGGAGCGACTTGACATCATGAAGGTTCTGATAACCGGGCCAGCGGACACCCCCTATGCAAATGGCTGCTTTGAGTTTGATGTATATTTTCCTCAAGATTATCCTAGCTCACCTCCTCTAGTGAACCTAGAAACAACTGGGGGTCATAGTGTGCGCTTCAATCCCAACCTTTACAATGATGGCAAGGTTTGTTTAAGCATCCTGAATACATGGCATGGAAGACCAGAAGAGAAGTGGAACCCTCAGACATCAAGCTTTTTGCAAGTGTTGGTTTCTGTCCAGTCCCTTATATTAGTAGCTGAGCCTTACTTCAATGAACCAGGATATGAACGGTCTAGAGGCACTCCCAGTGGTACACAGAGCTCTCGAGAATACGATGGGAACATCCGACAAGCAACGGTTAAATGGGCTATGCTAGAACAAATCAGAAATCCTTCACCGTGCTTTAAAGAAGTTATACACAAACATTTTTACTTGAAGAGAATTGAGCTCATGGCCCAGTGTGAGGAGTGGATTGCAGACATCCAGCAGTACAGCAGTGACAAGCGGGTGGGCAGGACCATGTCTCACCATGCAGCTGCTCTCAAGAAAAAAAACTAG
Peptide sequence:
MKPKPLSVLKSLEEKYVAVMKKLQFDTFEMVSEDDDGKLGFKVNYHYMSQVKNANDANSAARARRLAQEAVTLSTSLPLSSSSSVFVRCDEERLDIMKVLITGPADTPYANGCFEFDVYFPQDYPSSPPLVNLETTGGHSVRFNPNLYNDGKVCLSILNTWHGRPEEKWNPQTSSFLQVLVSVQSLILVAEPYFNEPGYERSRGTPSGTQSSREYDGNIRQATVKWAMLEQIRNPSPCFKEVIHKHFYLKRIELMAQCEEWIADIQQYSSDKRVGRTMSHHAAALKKKN
IRESfinder result
IRESfinder score
0.542667132
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page