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mmu_circAldh18a1_714
Basic information of circular RNA
PanCircBase ID:
mmu_circAldh18a1_714
mm39_Chr. Position ID:
chr19|40562214|40568520|-
Gene name:
Aldh18a1
Transcript:
ENSMUST00000176939.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
8,7,6,5,4
Exon/intron offsets:
0,446,3807,4001,6091
Genomic length:
6306
Exon/intron sizes in nt:
9,11,53,10,51,50,215
Flanking exon/introns:
chr19:40559036-40562214|chr19:40568520-40573933
Splice length:
714
Other database IDs:
circBase: hsa_circ_0094627, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_2901
Human Ortholog IDs:
Mature spliced Sequence:
ATCGTGTCCAGCCCTCAGCTATTAGACATGTTCGTTCTTGGAGCAACATCCCCTTTATCACGGTACCCCTCAGTCGTGCCCACGGCAAGCCCTTTGCCCACCGAAGTGAGCTGAAGCACGCCAAGAGAATTGTAGTGAAACTCGGCAGTGCCGTGGTGACCAGAGGAGATGAGTGTGGCCTGGCACTGGGACGCCTGGCATCTATTGTTGAACAGGTCTCGGTGCTGCAGAATCAGGGCCGAGAGATGATGCTGGTGACCAGTGGAGCCGTCGCCTTCGGCAAACAGCGCCTGCGCCATGAGATCCTTCTGTCTCAGAGCGTGCGGCAAGCCCTGCACTCAGGACAGAACCATCTGAAGGAGATGGCAATTCCGGTCTTAGAGGCCCGAGCCTGTGCAGCTGCTGGACAGAGTGGACTGATGGCCTTGTACGAGGCCATGTTTACACAGTACAGCATCTGTGCTGCCCAGATCTTGGTGACCAACCTGGATTTCCACGACGAGCAGAAGCGCAGAAATCTCAACGGTACCCTCCACGAGCTGCTCCGCATGAACATCGTCCCCATCGTCAACACAAACGATGCCGTCGTCCCTCCAGCCGAGCCCAACAGTGATCTTCAGGGGGTGATTAGTGTTAAGGATAATGATAGCCTGGCTGCCCGGCTGGCCGTGGAGATGAAAACCGACCTCTTGATTGTCCTCTCGGACGTAGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TAATGATAGCCTGGCTGCCC
59.6
GGGTACCGTGATAAAGGGGA
58.5
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TAATGATAGCCTGGCTGCCC
59.6
GGGTACCGTGATAAAGGGGAT
58.95
142
PCR template sequence:
CTTCAGGGGGTGATTAGTGTTAAGGATAATGATAGCCTGGCTGCCCGGCTGGCCGTGGAGATGAAAACCGACCTCTTGATTGTCCTCTCGGACGTAGAAGATCGTGTCCAGCCCTCAGCTATTAGACATGTTCGTTCTTGGAGCAACATCCCCTTTATCACGGTACCCCTCAGTCGTGCCCACGGCAAGCCCTTTGCCCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-30e-5p(1), mmu-miR-30a-5p(1), mmu-miR-30d-5p(1), mmu-miR-351-5p(1), mmu-miR-5101(1), mmu-miR-484(1), mmu-miR-3470b(1), mmu-miR-1904(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TCGGACGTAGAAGATCGTGTCCAGCC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCALDH18A1_714_ORF_1
1.3126
0.500471495
0.999565291
1182
ORF sequence:
ATGATGCTGGTGACCAGTGGAGCCGTCGCCTTCGGCAAACAGCGCCTGCGCCATGAGATCCTTCTGTCTCAGAGCGTGCGGCAAGCCCTGCACTCAGGACAGAACCATCTGAAGGAGATGGCAATTCCGGTCTTAGAGGCCCGAGCCTGTGCAGCTGCTGGACAGAGTGGACTGATGGCCTTGTACGAGGCCATGTTTACACAGTACAGCATCTGTGCTGCCCAGATCTTGGTGACCAACCTGGATTTCCACGACGAGCAGAAGCGCAGAAATCTCAACGGTACCCTCCACGAGCTGCTCCGCATGAACATCGTCCCCATCGTCAACACAAACGATGCCGTCGTCCCTCCAGCCGAGCCCAACAGTGATCTTCAGGGGGTGATTAGTGTTAAGGATAATGATAGCCTGGCTGCCCGGCTGGCCGTGGAGATGAAAACCGACCTCTTGATTGTCCTCTCGGACGTAGAAGATCGTGTCCAGCCCTCAGCTATTAGACATGTTCGTTCTTGGAGCAACATCCCCTTTATCACGGTACCCCTCAGTCGTGCCCACGGCAAGCCCTTTGCCCACCGAAGTGAGCTGAAGCACGCCAAGAGAATTGTAGTGAAACTCGGCAGTGCCGTGGTGACCAGAGGAGATGAGTGTGGCCTGGCACTGGGACGCCTGGCATCTATTGTTGAACAGGTCTCGGTGCTGCAGAATCAGGGCCGAGAGATGATGCTGGTGACCAGTGGAGCCGTCGCCTTCGGCAAACAGCGCCTGCGCCATGAGATCCTTCTGTCTCAGAGCGTGCGGCAAGCCCTGCACTCAGGACAGAACCATCTGAAGGAGATGGCAATTCCGGTCTTAGAGGCCCGAGCCTGTGCAGCTGCTGGACAGAGTGGACTGATGGCCTTGTACGAGGCCATGTTTACACAGTACAGCATCTGTGCTGCCCAGATCTTGGTGACCAACCTGGATTTCCACGACGAGCAGAAGCGCAGAAATCTCAACGGTACCCTCCACGAGCTGCTCCGCATGAACATCGTCCCCATCGTCAACACAAACGATGCCGTCGTCCCTCCAGCCGAGCCCAACAGTGATCTTCAGGGGGTGATTAGTGTTAAGGATAATGATAGCCTGGCTGCCCGGCTGGCCGTGGAGATGAAAACCGACCTCTTGATTGTCCTCTCGGACGTAGAA
Peptide sequence:
MMLVTSGAVAFGKQRLRHEILLSQSVRQALHSGQNHLKEMAIPVLEARACAAAGQSGLMALYEAMFTQYSICAAQILVTNLDFHDEQKRRNLNGTLHELLRMNIVPIVNTNDAVVPPAEPNSDLQGVISVKDNDSLAARLAVEMKTDLLIVLSDVEDRVQPSAIRHVRSWSNIPFITVPLSRAHGKPFAHRSELKHAKRIVVKLGSAVVTRGDECGLALGRLASIVEQVSVLQNQGREMMLVTSGAVAFGKQRLRHEILLSQSVRQALHSGQNHLKEMAIPVLEARACAAAGQSGLMALYEAMFTQYSICAAQILVTNLDFHDEQKRRNLNGTLHELLRMNIVPIVNTNDAVVPPAEPNSDLQGVISVKDNDSLAARLAVEMKTDLLIVLSDVE
IRESfinder result
IRESfinder score
0.293631207
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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