top of page
mmu_circAldh3a2_722
Basic information of circular RNA
PanCircBase ID:
mmu_circAldh3a2_722
mm39_Chr. Position ID:
chr11|61144449|61155157|-
Gene name:
Aldh3a2
Transcript:
ENSMUST00000066277.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
7,6,5,4,3
Exon/intron offsets:
0,3115,5117,8595,10622
Genomic length:
10708
Exon/intron sizes in nt:
167,142,118,209,86
Flanking exon/introns:
chr11:61141868-61144449|chr11:61155157-61155889
Splice length:
722
Other database IDs:
circAtlas: mmu-Aldh3a2_0004
circBase: hsa_circ_0106335, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_152140
Human Ortholog IDs:
Mature spliced Sequence:
GAAATGCTGCCATTGTTAAGCCCTCAGAACTCAGTGAAAACACGGCCAAGATCTTGGCTGAACTCCTCCCTCAGTACTTAGACCAGGACCTGTATGCGATTGTTAATGGCGGTATCCCGGAAACCACGGAGCTTCTGAAGCAGCGGTTTGACCACATTCTCTATACAGGGAACACTGCAGTTGGAAAAATTGTCATGGAAGCTGCTGCCAAGCATCTGACCCCTGTGACCCTGGAACTCGGCGGGAAAAGCCCTTGTTACATTGACAGAGACTGTGATCTGGACGTGGCTTGCAGACGCATAGCCTGGGGAAAGTACATGAATTGTGGTCAAACCTGCATTGCTCCTGACTATATCCTGTGCGAAGCCTCCCTCCAGAATCAAATCGTACAGAAGATTAAGGAAACGGTGAAGGACTTTTATGGGGAAAACATAAAGGCTTCTCCTGACTATGAAAGGATCATCAATCTTCGTCACTTTAAGAGGTTACAAAGTCTGCTTAAAGGCCAGAAAATAGCTTTCGGTGGAGAGATGGATGAGGCCACACGCTACTTAGCCCCAACCATACTTACAGATGTTGATCCTAACTCCAAGGTGATGCAAGAAGAAATTTTTGGACCAATTCTTCCAATAGTGTCTGTGAAAAATGTAGACGAAGCCATAAATTTCATAAATGACCGTGAAAAGCCCCTGGCTCTCTACGTATTTTCTCGTAACAATAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AATGACCGTGAAAAGCCCCT
59.89
TCGCATACAGGTCCTGGTCT
60.32
150
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AATGACCGTGAAAAGCCCCT
59.89
ATCGCATACAGGTCCTGGTC
59.25
151
PCR template sequence:
TCTTCCAATAGTGTCTGTGAAAAATGTAGACGAAGCCATAAATTTCATAAATGACCGTGAAAAGCCCCTGGCTCTCTACGTATTTTCTCGTAACAATAAGGAAATGCTGCCATTGTTAAGCCCTCAGAACTCAGTGAAAACACGGCCAAGATCTTGGCTGAACTCCTCCCTCAGTACTTAGACCAGGACCTGTATGCGAT
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-135a-5p(1), mmu-miR-411-3p(1), mmu-miR-452-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TCGTAACAATAAGGAAATGCTGCCAT
siRNA sets
CATTTCCTTATTGTTACGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCALDH3A2_722_ORF_1
0.9511
0.137738632
0.809958137
609
ORF sequence:
ATGGAAGCTGCTGCCAAGCATCTGACCCCTGTGACCCTGGAACTCGGCGGGAAAAGCCCTTGTTACATTGACAGAGACTGTGATCTGGACGTGGCTTGCAGACGCATAGCCTGGGGAAAGTACATGAATTGTGGTCAAACCTGCATTGCTCCTGACTATATCCTGTGCGAAGCCTCCCTCCAGAATCAAATCGTACAGAAGATTAAGGAAACGGTGAAGGACTTTTATGGGGAAAACATAAAGGCTTCTCCTGACTATGAAAGGATCATCAATCTTCGTCACTTTAAGAGGTTACAAAGTCTGCTTAAAGGCCAGAAAATAGCTTTCGGTGGAGAGATGGATGAGGCCACACGCTACTTAGCCCCAACCATACTTACAGATGTTGATCCTAACTCCAAGGTGATGCAAGAAGAAATTTTTGGACCAATTCTTCCAATAGTGTCTGTGAAAAATGTAGACGAAGCCATAAATTTCATAAATGACCGTGAAAAGCCCCTGGCTCTCTACGTATTTTCTCGTAACAATAAGGAAATGCTGCCATTGTTAAGCCCTCAGAACTCAGTGAAAACACGGCCAAGATCTTGGCTGAACTCCTCCCTCAGTACTTAG
Peptide sequence:
MEAAAKHLTPVTLELGGKSPCYIDRDCDLDVACRRIAWGKYMNCGQTCIAPDYILCEASLQNQIVQKIKETVKDFYGENIKASPDYERIINLRHFKRLQSLLKGQKIAFGGEMDEATRYLAPTILTDVDPNSKVMQEEIFGPILPIVSVKNVDEAINFINDREKPLALYVFSRNNKEMLPLLSPQNSVKTRPRSWLNSSLST
IRESfinder result
IRESfinder score
0.554489012
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page