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mmu_circAblim1_294
Basic information of circular RNA
PanCircBase ID:
mmu_circAblim1_294
mm39_Chr. Position ID:
chr19|57140704|57143767|-
Gene name:
Ablim1
Transcript:
ENSMUST00000079360.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
4,3
Exon/intron offsets:
0,2879
Genomic length:
3063
Exon/intron sizes in nt:
1,10,184
Flanking exon/introns:
chr19:57123140-57140704|chr19:57143767-57161756
Splice length:
294
Other database IDs:
circAtlas: mmu-Ablim1_0003
circBase: hsa_circ_0020074, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_471
Human Ortholog IDs:
Mature spliced Sequence:
TGTGCGGCTGCGACCTGGCCCAGGGGGGCTTCTTCATAAAGAACGGGGACTATCTGTGTACCCTGGACTACCAGAGGATGTATGGGACACGGTGCCACGGCTGTGGGGAGTTCGTGGAGGGCGAGGTGGTAACTGCCCTGGGCAAGACCTACCACCCCAACTGCTTCGCCTGTACAATCTGCAAGCGCCCATTTCCACCCGGAGACCGAGTCACATTCAACGGGAGAGACTGTCTTTGTCAGCTCTGTGCACAGCCGATGTCTTCCAGCCCTAAAGAAGCCTCCTGCTCCAGCA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCGAGTCACATTCAACGGGA
60.04
GGGTACACAGATAGTCCCCG
58.96
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCGAGTCACATTCAACGGGA
60.04
CGTGTCCCATACATCCTCTGG
59.93
180
PCR template sequence:
CCACCCGGAGACCGAGTCACATTCAACGGGAGAGACTGTCTTTGTCAGCTCTGTGCACAGCCGATGTCTTCCAGCCCTAAAGAAGCCTCCTGCTCCAGCATGTGCGGCTGCGACCTGGCCCAGGGGGGCTTCTTCATAAAGAACGGGGACTATCTGTGTACCCTGGACTACCAGAGGATGTATGGGACACGGTGCCACGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-7b-5p(1), mmu-miR-7a-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TCCTGCTCCAGCATGTGCGGCTGCGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCABLIM1_294_ORF_1
1.056
0.292122545
0.829432098
510
ORF sequence:
ATGTATGGGACACGGTGCCACGGCTGTGGGGAGTTCGTGGAGGGCGAGGTGGTAACTGCCCTGGGCAAGACCTACCACCCCAACTGCTTCGCCTGTACAATCTGCAAGCGCCCATTTCCACCCGGAGACCGAGTCACATTCAACGGGAGAGACTGTCTTTGTCAGCTCTGTGCACAGCCGATGTCTTCCAGCCCTAAAGAAGCCTCCTGCTCCAGCATGTGCGGCTGCGACCTGGCCCAGGGGGGCTTCTTCATAAAGAACGGGGACTATCTGTGTACCCTGGACTACCAGAGGATGTATGGGACACGGTGCCACGGCTGTGGGGAGTTCGTGGAGGGCGAGGTGGTAACTGCCCTGGGCAAGACCTACCACCCCAACTGCTTCGCCTGTACAATCTGCAAGCGCCCATTTCCACCCGGAGACCGAGTCACATTCAACGGGAGAGACTGTCTTTGTCAGCTCTGTGCACAGCCGATGTCTTCCAGCCCTAAAGAAGCCTCCTGCTCCAGC
Peptide sequence:
MYGTRCHGCGEFVEGEVVTALGKTYHPNCFACTICKRPFPPGDRVTFNGRDCLCQLCAQPMSSSPKEASCSSMCGCDLAQGGFFIKNGDYLCTLDYQRMYGTRCHGCGEFVEGEVVTALGKTYHPNCFACTICKRPFPPGDRVTFNGRDCLCQLCAQPMSSSPKEASCSS
IRESfinder result
IRESfinder score
0.441358691
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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