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mmu_circSfi1_656
Basic information of circular RNA
PanCircBase ID:
mmu_circSfi1_656
mm39_Chr. Position ID:
chr11|3114556|3136136|-
Gene name:
Sfi1
Transcript:
ENSMUST00000101655.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
8,7,6,5,4,3
Exon/intron offsets:
0,1019,6030,12870,14840,21508
Genomic length:
21580
Exon/intron sizes in nt:
157,103,118,95,111,72
Flanking exon/introns:
chr11:3110146-3114556|chr11:3136136-3137239
Splice length:
656
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GTGTGTGGCCAGAAAGTTCCTGTATTTGTGGATTCGAGTGACTTTTGGAAGAGTGACTCCCTCTAGAGCCAGGATTTTCCATGAGCAGAAAATATTACAGAAGGTCTTCGGAGAATGGAGGGAAGAATGGTGGGTCTCCCAGAGGGAGTGGAAGCTCTGTGTCCGAGCTGACTGTCACTACAGATACTACTTGTACAACCTGATTTTCCAGAACTGGAAGACCTTTGTGCACCAGCAACGGGAGATGAGGAAGAGGTTCCGAATAGCTGAGCATCATGATACGAAGCAGAAGATGTGCCAAGCCTGGAAGTCCTGGTTGATATACATGGTTTCTCGTAGGACCAAACTTCACATGAAGACTACTGCTCTAGAGTTTAGGAGGCAGAGTGTCTTATGTTTCTGGTGGAGCAAGTGGAGGTGGCGACTAGGACAAGCCCATGCAGAGCACGCTCTCCATGCAGTGGCTGTGAAGCACAGGGCCCTGAGCCTCCAGCTGCAGGGTTGGCTGCGATGGCAAGAACAGCTTCTAATTAGCCAGCGAGATAGGAGGAAGGAGGCCACTGCTGTGCAACACTATCAGCACTGGCAGAAGCAGAGATCTCTGAAGGCTTGGCTTAAATACCTCCAAATCTGCAGGGTGAAGAGATGGCAGAATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCACTGGCAGAAGCAGAGAT
60.39
CCTGGCTCTAGAGGGAGTCA
59.74
150
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCAACACTATCAGCACTGGC
59.55
CCTGGCTCTAGAGGGAGTCA
59.74
162
PCR template sequence:
GCCACTGCTGTGCAACACTATCAGCACTGGCAGAAGCAGAGATCTCTGAAGGCTTGGCTTAAATACCTCCAAATCTGCAGGGTGAAGAGATGGCAGAATGGTGTGTGGCCAGAAAGTTCCTGTATTTGTGGATTCGAGTGACTTTTGGAAGAGTGACTCCCTCTAGAGCCAGGATTTTCCATGAGCAGAAAATATTACAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-205-5p(1), mmu-miR-217-5p(1), mmu-miR-136-5p(1), mmu-miR-433-3p(1), mmu-miR-199b-3p(1), mmu-miR-199a-3p(1), mmu-miR-224-5p(1), mmu-miR-3470b(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
AGATGGCAGAATGGTGTGTGGCCAGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSFI1_656_ORF_1
0.9038
0.083618393
0.825622717
666
ORF sequence:
ATGGCAGAATGGTGTGTGGCCAGAAAGTTCCTGTATTTGTGGATTCGAGTGACTTTTGGAAGAGTGACTCCCTCTAGAGCCAGGATTTTCCATGAGCAGAAAATATTACAGAAGGTCTTCGGAGAATGGAGGGAAGAATGGTGGGTCTCCCAGAGGGAGTGGAAGCTCTGTGTCCGAGCTGACTGTCACTACAGATACTACTTGTACAACCTGATTTTCCAGAACTGGAAGACCTTTGTGCACCAGCAACGGGAGATGAGGAAGAGGTTCCGAATAGCTGAGCATCATGATACGAAGCAGAAGATGTGCCAAGCCTGGAAGTCCTGGTTGATATACATGGTTTCTCGTAGGACCAAACTTCACATGAAGACTACTGCTCTAGAGTTTAGGAGGCAGAGTGTCTTATGTTTCTGGTGGAGCAAGTGGAGGTGGCGACTAGGACAAGCCCATGCAGAGCACGCTCTCCATGCAGTGGCTGTGAAGCACAGGGCCCTGAGCCTCCAGCTGCAGGGTTGGCTGCGATGGCAAGAACAGCTTCTAATTAGCCAGCGAGATAGGAGGAAGGAGGCCACTGCTGTGCAACACTATCAGCACTGGCAGAAGCAGAGATCTCTGAAGGCTTGGCTTAAATACCTCCAAATCTGCAGGGTGAAGAGATGGCAGAAT
Peptide sequence:
MAEWCVARKFLYLWIRVTFGRVTPSRARIFHEQKILQKVFGEWREEWWVSQREWKLCVRADCHYRYYLYNLIFQNWKTFVHQQREMRKRFRIAEHHDTKQKMCQAWKSWLIYMVSRRTKLHMKTTALEFRRQSVLCFWWSKWRWRLGQAHAEHALHAVAVKHRALSLQLQGWLRWQEQLLISQRDRRKEATAVQHYQHWQKQRSLKAWLKYLQICRVKRWQN
IRESfinder result
IRESfinder score
0.470459311
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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