top of page
mmu_circAppbp2_365
Basic information of circular RNA
PanCircBase ID:
mmu_circAppbp2_365
mm39_Chr. Position ID:
chr11|85105061|85107350|-
Gene name:
Appbp2
Transcript:
ENSMUST00000018625.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
4,3,2
Exon/intron offsets:
0,874,2200
Genomic length:
2289
Exon/intron sizes in nt:
124,152,89
Flanking exon/introns:
chr11:85100934-85105061|chr11:85107350-85125497
Splice length:
365
Other database IDs:
CIRCpedia: MMU_CIRCpedia_223652, circAtlas: mmu-Appbp2_0001
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_21746
Human Ortholog IDs:
Mature spliced Sequence:
CTTTACCAACAGGGACGCTTGTGTCAGCTCGGCAGTGAATTCTGTGAATTGGAAGTTTTTGCTAAAGTTTTGAGAGCTTTGGATAAAAGACATTTGCTCCACCACTGTTTTCAGGCTCTGATGGACCATGGCGTTAAGGTAGCTTCCGTCTTGGCCTACTCCTTCAGTAGACGGTGCTCTTACATAGCAGAGTCCGACGCTGCAGTAAAGGAGAAGGCCATCCAGGTTGGCTTTGTCTTAGGTGGCTTTCTTTCTGATGCAGGCTGGTACAGTGATGCTGAAAAGGTTTTTCTGTCCTGCCTTCAGTTGTGTACGCTACATGATGAGATGCTCCACTGGTTCCGAGCAGTGGAGTGTTGTGTGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGCCTTCAGTTGTGTACGCT
59.89
TCCAAAGCTCTCAAAACTTTAGCA
59.11
151
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGCCTTCAGTTGTGTACGCT
59.89
CCAAAGCTCTCAAAACTTTAGCA
57.81
150
PCR template sequence:
GGTACAGTGATGCTGAAAAGGTTTTTCTGTCCTGCCTTCAGTTGTGTACGCTACATGATGAGATGCTCCACTGGTTCCGAGCAGTGGAGTGTTGTGTGAGCTTTACCAACAGGGACGCTTGTGTCAGCTCGGCAGTGAATTCTGTGAATTGGAAGTTTTTGCTAAAGTTTTGAGAGCTTTGGATAAAAGACATTTGCTCC
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-342-3p(1), mmu-miR-377-3p(1), mmu-miR-490-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGTGTTGTGTGAGCTTTACCAACAGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAPPBP2_365_ORF_1
0.8444
0.080671489
0.256300823
318
ORF sequence:
ATGGACCATGGCGTTAAGGTAGCTTCCGTCTTGGCCTACTCCTTCAGTAGACGGTGCTCTTACATAGCAGAGTCCGACGCTGCAGTAAAGGAGAAGGCCATCCAGGTTGGCTTTGTCTTAGGTGGCTTTCTTTCTGATGCAGGCTGGTACAGTGATGCTGAAAAGGTTTTTCTGTCCTGCCTTCAGTTGTGTACGCTACATGATGAGATGCTCCACTGGTTCCGAGCAGTGGAGTGTTGTGTGAGCTTTACCAACAGGGACGCTTGTGTCAGCTCGGCAGTGAATTCTGTGAATTGGAAGTTTTTGCTAAAGTTTTGA
Peptide sequence:
MDHGVKVASVLAYSFSRRCSYIAESDAAVKEKAIQVGFVLGGFLSDAGWYSDAEKVFLSCLQLCTLHDEMLHWFRAVECCVSFTNRDACVSSAVNSVNWKFLLKF
IRESfinder result
IRESfinder score
0.575315722
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page