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mmu_circAlg13_669
Basic information of circular RNA
PanCircBase ID:
mmu_circAlg13_669
mm39_Chr. Position ID:
chrX|143123715|143131056|+
Gene name:
Alg13
Transcript:
ENSMUST00000238864.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
8,9,10,11,12,13,14
Exon/intron offsets:
0,1676,1927,3541,4892,5962,7240
Genomic length:
7341
Exon/intron sizes in nt:
73,82,16,37,61,09,65,100
Flanking exon/introns:
chrX:143122767-143123715|chrX:143131056-143132287
Splice length:
669
Other database IDs:
circAtlas: hsa-ALG13_0028
Human Ortholog IDs:
Mature spliced Sequence:
TCGAGATTTCATTATTTATCGTTATCCTGGAAAGCCACCAACTCAAGTCACAGATAATGGCTTTGAAGACAAGATTATTCTCTGTTATTCAAATAATGGCCATTATGATTCTGTATATTCAAAAGAATTTCAATCAACTGCAGGAATTTGTCAAGCTATATTATATGAACTTCTTTATAAAGATGTATTTGTTGTGGATGAAGAAACGTTGAAAACTGCAGTCGATTTATTTCGAAGTGGTTCCAGGAGAAACAAACACCATGCTTTGACTGCAAGTGTAGAAGGCAGTAGTGATCAGAAGAGTTCAACCGAAGATAGAACTGAAGAGGCTGCCGCCTGTTCCAGTGCTGCAAGTACACCAGAAGGCAATAAGCAAGGGACAGAAAGACAAAAGGTTCCAGAAAGTCCGTCAAAGATGCTGTTTCCCTATAAGGTGCTGAAAGCTCTGGATCCAGAAATCTATCGAAATGTGGAATTTGATGCTTGGTTGGACAGTAGAAAAGAACTTCAAAAATCAGAGTGTGTGGAGTATGGTGGAAGATATTACTTTTTAGGAGACAAATGTCAGGTTTGCATGGAATCAGGTGGAAAATATTATAATGCTCACATTCAGGAAATTGATAATGATAAAAGTTCAGTAGTAGTTTTCATTGAGGAATTTGCAGAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGCATGGAATCAGGTGGAAA
57.4
GAGTTGGTGGCTTTCCAGGA
59.89
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTGCATGGAATCAGGTGGAA
57.4
GAGTTGGTGGCTTTCCAGGA
59.89
143
PCR template sequence:
TTTGCATGGAATCAGGTGGAAAATATTATAATGCTCACATTCAGGAAATTGATAATGATAAAAGTTCAGTAGTAGTTTTCATTGAGGAATTTGCAGAAAGTCGAGATTTCATTATTTATCGTTATCCTGGAAAGCCACCAACTCAAGTCACAGATAATGGCTTTGAAGACAAGATTATTCTCTGTTATTCAAATAATGGC
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-23a-3p(1), mmu-miR-7a-1-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AATTTGCAGAAAGTCGAGATTTCATT
siRNA sets
AATGAAATCTCGACTTTCT, GAAATCTCGACTTTCTGCA, ATGAAATCTCGACTTTCTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCALG13_669_ORF_1
1.118
0.041567211
0.973938823
921
ORF sequence:
ATGCTGTTTCCCTATAAGGTGCTGAAAGCTCTGGATCCAGAAATCTATCGAAATGTGGAATTTGATGCTTGGTTGGACAGTAGAAAAGAACTTCAAAAATCAGAGTGTGTGGAGTATGGTGGAAGATATTACTTTTTAGGAGACAAATGTCAGGTTTGCATGGAATCAGGTGGAAAATATTATAATGCTCACATTCAGGAAATTGATAATGATAAAAGTTCAGTAGTAGTTTTCATTGAGGAATTTGCAGAAAGTCGAGATTTCATTATTTATCGTTATCCTGGAAAGCCACCAACTCAAGTCACAGATAATGGCTTTGAAGACAAGATTATTCTCTGTTATTCAAATAATGGCCATTATGATTCTGTATATTCAAAAGAATTTCAATCAACTGCAGGAATTTGTCAAGCTATATTATATGAACTTCTTTATAAAGATGTATTTGTTGTGGATGAAGAAACGTTGAAAACTGCAGTCGATTTATTTCGAAGTGGTTCCAGGAGAAACAAACACCATGCTTTGACTGCAAGTGTAGAAGGCAGTAGTGATCAGAAGAGTTCAACCGAAGATAGAACTGAAGAGGCTGCCGCCTGTTCCAGTGCTGCAAGTACACCAGAAGGCAATAAGCAAGGGACAGAAAGACAAAAGGTTCCAGAAAGTCCGTCAAAGATGCTGTTTCCCTATAAGGTGCTGAAAGCTCTGGATCCAGAAATCTATCGAAATGTGGAATTTGATGCTTGGTTGGACAGTAGAAAAGAACTTCAAAAATCAGAGTGTGTGGAGTATGGTGGAAGATATTACTTTTTAGGAGACAAATGTCAGGTTTGCATGGAATCAGGTGGAAAATATTATAATGCTCACATTCAGGAAATTGATAATGATAAAAGTTCAGTAGTAGTTTTCATTGAGGAATTTGCAGAA
Peptide sequence:
MLFPYKVLKALDPEIYRNVEFDAWLDSRKELQKSECVEYGGRYYFLGDKCQVCMESGGKYYNAHIQEIDNDKSSVVVFIEEFAESRDFIIYRYPGKPPTQVTDNGFEDKIILCYSNNGHYDSVYSKEFQSTAGICQAILYELLYKDVFVVDEETLKTAVDLFRSGSRRNKHHALTASVEGSSDQKSSTEDRTEEAAACSSAASTPEGNKQGTERQKVPESPSKMLFPYKVLKALDPEIYRNVEFDAWLDSRKELQKSECVEYGGRYYFLGDKCQVCMESGGKYYNAHIQEIDNDKSSVVVFIEEFAE
IRESfinder result
IRESfinder score
0.712199192
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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