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mmu_circAlg12_690
Basic information of circular RNA
PanCircBase ID:
mmu_circAlg12_690
mm39_Chr. Position ID:
chr15|88698656|88700457|-
Gene name:
Alg12
Transcript:
ENSMUST00000162183.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
5,4,3,2
Exon/intron offsets:
0,840,1404,1613
Genomic length:
1801
Exon/intron sizes in nt:
1,95,17,41,33,188
Flanking exon/introns:
chr15:88696362-88698656|chr15:88700457-88703460
Splice length:
690
Other database IDs:
CIRCpedia: MMU_CIRCpedia_33208, circAtlas: mmu-Alg12_0002
Human Ortholog IDs:
Mature spliced Sequence:
GCGCATGAAGTTCAAAGCTCTACATGGCTGGCAAGAAGTCATCGGGCAAGCGGTCATGGCCGCTTCTGGGGCTGCTGGTCACTGTAGCCACCATCCACCTGGTTATATGTCCCTACACCAAGGTAGAAGAGAGCTTCAACCTTCAGGCCACACATGACCTCCTGTACCACCAGCTGGACATAGACAAGTACGACCACCACGAGTTTCCTGGAGTTGTTCCTAGGACGTTCCTCGGGCCGCTGGTGATCGCAGCGTTCTCCAGCCCCGTGGTTTATGTGCTCTCGCTTTTAGAAGTATCCAAATTTTATTCTCAGCTGATAGTCAGAGGAGTCCTTGGGCTTGGTGTGATTTCTGGACTCTGGACATTACAAAAGGAAGTGAGACAGCAGTTCGGAGCCACGGTGGCTGTCATGTTCTGCTGGATATCAGCCACACAGTTTCATCTCATGTTCTACTGTACGAGGACACTCCCCAACGTGTTGGCCCTGGCTGTGGTCTTACCAGCCCTCACAGCCTGGCTGCAGCGGAGGTGGGCCCTGTTTGTCTGGCTCTCAGCCTTCGTCATCATTGGCTTCAGGGCTGAGCTGGCCATGCTGCTGGGCATTGCGCTGCTGCTGACCTTGTACCAAAGAAGACTGACGGTGGCCAGAGTGCTCCGACACGCCATCCCAGCAGGGCTTCTCTGTCTAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTGCTGCTGACCTTGTACCA
59.96
GGATGGTGGCTACAGTGACC
60.11
178
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAAGAAGACTGACGGTGGCC
60.25
GGATGGTGGCTACAGTGACC
60.11
159
PCR template sequence:
ATGCTGCTGGGCATTGCGCTGCTGCTGACCTTGTACCAAAGAAGACTGACGGTGGCCAGAGTGCTCCGACACGCCATCCCAGCAGGGCTTCTCTGTCTAGGCGCATGAAGTTCAAAGCTCTACATGGCTGGCAAGAAGTCATCGGGCAAGCGGTCATGGCCGCTTCTGGGGCTGCTGGTCACTGTAGCCACCATCCACCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-322-5p(1), mmu-miR-143-3p(1), mmu-miR-139-5p(1), mmu-miR-495-3p(1), mmu-miR-214-3p(1), mmu-miR-370-3p(1), mmu-miR-410-3p(1), mmu-miR-344d-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTTCTCTGTCTAGGCGCATGAAGTTC
siRNA sets
ATGCGCCTAGACAGAGAAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCALG12_690_ORF_1
1.0642
0.225302037
0.923850449
675
ORF sequence:
ATGGCTGGCAAGAAGTCATCGGGCAAGCGGTCATGGCCGCTTCTGGGGCTGCTGGTCACTGTAGCCACCATCCACCTGGTTATATGTCCCTACACCAAGGTAGAAGAGAGCTTCAACCTTCAGGCCACACATGACCTCCTGTACCACCAGCTGGACATAGACAAGTACGACCACCACGAGTTTCCTGGAGTTGTTCCTAGGACGTTCCTCGGGCCGCTGGTGATCGCAGCGTTCTCCAGCCCCGTGGTTTATGTGCTCTCGCTTTTAGAAGTATCCAAATTTTATTCTCAGCTGATAGTCAGAGGAGTCCTTGGGCTTGGTGTGATTTCTGGACTCTGGACATTACAAAAGGAAGTGAGACAGCAGTTCGGAGCCACGGTGGCTGTCATGTTCTGCTGGATATCAGCCACACAGTTTCATCTCATGTTCTACTGTACGAGGACACTCCCCAACGTGTTGGCCCTGGCTGTGGTCTTACCAGCCCTCACAGCCTGGCTGCAGCGGAGGTGGGCCCTGTTTGTCTGGCTCTCAGCCTTCGTCATCATTGGCTTCAGGGCTGAGCTGGCCATGCTGCTGGGCATTGCGCTGCTGCTGACCTTGTACCAAAGAAGACTGACGGTGGCCAGAGTGCTCCGACACGCCATCCCAGCAGGGCTTCTCTGTCTAGGCGCATGA
Peptide sequence:
MAGKKSSGKRSWPLLGLLVTVATIHLVICPYTKVEESFNLQATHDLLYHQLDIDKYDHHEFPGVVPRTFLGPLVIAAFSSPVVYVLSLLEVSKFYSQLIVRGVLGLGVISGLWTLQKEVRQQFGATVAVMFCWISATQFHLMFYCTRTLPNVLALAVVLPALTAWLQRRWALFVWLSAFVIIGFRAELAMLLGIALLLTLYQRRLTVARVLRHAIPAGLLCLGA
IRESfinder result
IRESfinder score
0.437228897
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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