top of page
mmu_circArl13b_321
Basic information of circular RNA
PanCircBase ID:
mmu_circArl13b_321
mm39_Chr. Position ID:
chr16|62647526|62651176|-
Gene name:
Arl13b
Transcript:
ENSMUST00000089289.6
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
3,2
Exon/intron offsets:
0,3579
Genomic length:
3650
Exon/intron sizes in nt:
250,71
Flanking exon/introns:
chr16:62633627-62647526|chr16:62651176-62667047
Splice length:
321
Other database IDs:
circBase: mmu_circ_0006364, CIRCpedia: MMU_CIRCpedia_25402, circAtlas: mmu-Arl13b_0001
circBase: hsa_circ_0006135, circAtlas: hsa-ARL13B_0001, CIRCpedia: HSA_CIRCpedia_46836
Human Ortholog IDs:
Mature spliced Sequence:
AAAGGTGACACTTGTGATGGTCGGCCTTGATAATGCTGGTAAAACAGCCACAGCAAAGGGAATCCAAGGAGAGCATCCTGAAGACGTAGCTCCCACTGTTGGCTTTTCTAAAATTGATCTGAGACAAGGAAAGTTCCAAGTTACCATCTTTGACTTAGGAGGTGGAAAAAGAATTCGGGGAATTTGGAAGAATTATTATGCTGAATCCTATGGGGTAATATTTGTTGTGGATTCCAGTGATGAGGAGAGAATGGAAGAAACAAAGGAGACAATGTCCGAAGTGCTAAGACACCCGAGGATATCAGGAAAGCCTATATTGGT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGAAGTGCTAAGACACCCGA
59.76
TGGGAGCTACGTCTTCAGGA
59.96
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGAAGTGCTAAGACACCCGA
59.76
GTGGGAGCTACGTCTTCAGG
59.83
141
PCR template sequence:
TTGTTGTGGATTCCAGTGATGAGGAGAGAATGGAAGAAACAAAGGAGACAATGTCCGAAGTGCTAAGACACCCGAGGATATCAGGAAAGCCTATATTGGTAAAGGTGACACTTGTGATGGTCGGCCTTGATAATGCTGGTAAAACAGCCACAGCAAAGGGAATCCAAGGAGAGCATCCTGAAGACGTAGCTCCCACTGTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
NA
Interacting miRNAs (#binding sites)
NA
siRNAs for circular RNA silencing
Junction sequence
AGCCTATATTGGTAAAGGTGACACTT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARL13B_321_ORF_1
1.0213
0.064511466
0.803432128
624
ORF sequence:
ATGGTCGGCCTTGATAATGCTGGTAAAACAGCCACAGCAAAGGGAATCCAAGGAGAGCATCCTGAAGACGTAGCTCCCACTGTTGGCTTTTCTAAAATTGATCTGAGACAAGGAAAGTTCCAAGTTACCATCTTTGACTTAGGAGGTGGAAAAAGAATTCGGGGAATTTGGAAGAATTATTATGCTGAATCCTATGGGGTAATATTTGTTGTGGATTCCAGTGATGAGGAGAGAATGGAAGAAACAAAGGAGACAATGTCCGAAGTGCTAAGACACCCGAGGATATCAGGAAAGCCTATATTGGTAAAGGTGACACTTGTGATGGTCGGCCTTGATAATGCTGGTAAAACAGCCACAGCAAAGGGAATCCAAGGAGAGCATCCTGAAGACGTAGCTCCCACTGTTGGCTTTTCTAAAATTGATCTGAGACAAGGAAAGTTCCAAGTTACCATCTTTGACTTAGGAGGTGGAAAAAGAATTCGGGGAATTTGGAAGAATTATTATGCTGAATCCTATGGGGTAATATTTGTTGTGGATTCCAGTGATGAGGAGAGAATGGAAGAAACAAAGGAGACAATGTCCGAAGTGCTAAGACACCCGAGGATATCAGGAAAGCCTATATTG
Peptide sequence:
MVGLDNAGKTATAKGIQGEHPEDVAPTVGFSKIDLRQGKFQVTIFDLGGGKRIRGIWKNYYAESYGVIFVVDSSDEERMEETKETMSEVLRHPRISGKPILVKVTLVMVGLDNAGKTATAKGIQGEHPEDVAPTVGFSKIDLRQGKFQVTIFDLGGGKRIRGIWKNYYAESYGVIFVVDSSDEERMEETKETMSEVLRHPRISGKPIL
IRESfinder result
IRESfinder score
0.446349927
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page