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mmu_circAdam9_1275
Basic information of circular RNA
PanCircBase ID:
mmu_circAdam9_1275
mm39_Chr. Position ID:
chr8|25460601|25485191|-
Gene name:
Adam9
Transcript:
ENSMUST00000084035.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
16,15,14,13,12,11,10,9,8,7
Exon/intron offsets:
0,2443,7842,8837,11365,19681,20665,21488,22458,24524
Genomic length:
24590
Exon/intron sizes in nt:
184,106,196,93,172,134,82,170,72,66
Flanking exon/introns:
chr8:25457245-25460601|chr8:25485191-25486670
Splice length:
1275
Other database IDs:
CIRCpedia: HSA_CIRCpedia_61027
Human Ortholog IDs:
Mature spliced Sequence:
AGAAGAAGAGCTGTTCTACCACAGACCCGCTATGTGGAGCTGTTCATTGTTGTAGACAAGGAAAGGTACGACATGATGGGACGGAACCAGACTGCTGTGAGAGAAGAGATGATTCGCTTAGCAAACTACCTGGATAGCATGTACATCATGTTAAACATTCGAATTGTGCTGGTTGGACTAGAAATTTGGACAGACAGAAATCCTATCAATATAATTGGAGGAGCTGGAGATGTGCTGGGCAACTTTGTTCAGTGGCGGGAAAAGTTCCTTATAACTCGTTGGAGACACGACAGTGCACAGTTGGTTTTGAAGAAAGGCTTTGGTGGAACTGCAGGAATGGCGTTTGTAGGAACAGTATGTTCAAGGAGCCACGCAGGTGGGATCAATGTGTTTGGGCAAATCACTGTGGAGACATTTGCATCCATTGTTGCTCATGAATTGGGGCATAACCTTGGAATGAATCATGATGATGGGAGAGAGTGTTTCTGTGGAGCAAAGAGCTGTATCATGAATTCAGGAGCATCCGGGTCCAGAAACTTTAGCAGTTGCAGTGCGGAGGACTTTGAGAAGTTAACGTTGAATAAGGGAGGAAGCTGCCTGCTTAACATCCCGAAGCCCGACGAAGCCTACAGCGCGCCCTCCTGTGGTAATAAGCTGGTGGACCCTGGAGAGGAGTGTGACTGCGGCACAGCGAAGGAGTGTGAGGTGGACCCATGCTGTGAAGGAAGCACTTGTAAGCTCAAGTCATTTGCTGAGTGTGCATATGGCGACTGTTGTAAAGATTGCCAGTTCCTTCCAGGAGGCTCCATGTGCAGAGGGAAGACCAGTGAGTGTGATGTTCCTGAGTACTGCAACGGTTCCTCTCAGTTCTGCCCGCCAGATGTCTTCATTCAGAATGGATATCCTTGCCAGAACAGCAAAGCCTACTGCTACAATGGCATGTGCCAATATTATGACGCGCAGTGTCAGGTCATCTTTGGTTCAAAGGCTAAGGCTGCCCCAAGAGATTGCTTCATTGAAGTCAATTCTAAAGGTGACAGATTTGGCAACTGTGGTTTCTCCGGCAGTGAGTACAAGAAGTGTGCCACTGGGAACGCGCTGTGTGGAAAGCTTCAATGCGAGAATGTACAGGACATGCCGGTGTTTGGAATAGTACCAGCTATCATTCAGACACCCAGTCGAGGCACCAAATGCTGGGGTGTGGATTTCCAGCTTGGTTCCGACGTTCCAGACCCAGGGATGGTGAATGAAGGCACCAAATGTGATGCTGGCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTTGGTTCCGACGTTCCAGA
59.97
CAGTCTGGTTCCGTCCCATC
60.11
157
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTTGGTTCCGACGTTCCAGA
59.97
GTTCCGTCCCATCATGTCGT
60.11
150
PCR template sequence:
CAGTCGAGGCACCAAATGCTGGGGTGTGGATTTCCAGCTTGGTTCCGACGTTCCAGACCCAGGGATGGTGAATGAAGGCACCAAATGTGATGCTGGCAAGAGAAGAAGAGCTGTTCTACCACAGACCCGCTATGTGGAGCTGTTCATTGTTGTAGACAAGGAAAGGTACGACATGATGGGACGGAACCAGACTGCTGTGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-433-3p(2), mmu-miR-673-5p(2), mmu-miR-205-5p(1), mmu-miR-196a-5p(1), mmu-miR-434-3p(1), mmu-miR-434-5p(1), mmu-miR-96-5p(1), mmu-miR-212-3p(1), mmu-miR-324-3p(1), mmu-miR-666-5p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGATGCTGGCAAGAGAAGAAGAGCTG
siRNA sets
CTCTTCTTCTCTTGCCAGC,TCTTCTTCTCTTGCCAGCA,CAGCTCTTCTTCTCTTGCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCADAM9_1275_ORF_1
0.9263
0.193288047
0.999999721
2478
ORF sequence:
ATGATGGGACGGAACCAGACTGCTGTGAGAGAAGAGATGATTCGCTTAGCAAACTACCTGGATAGCATGTACATCATGTTAAACATTCGAATTGTGCTGGTTGGACTAGAAATTTGGACAGACAGAAATCCTATCAATATAATTGGAGGAGCTGGAGATGTGCTGGGCAACTTTGTTCAGTGGCGGGAAAAGTTCCTTATAACTCGTTGGAGACACGACAGTGCACAGTTGGTTTTGAAGAAAGGCTTTGGTGGAACTGCAGGAATGGCGTTTGTAGGAACAGTATGTTCAAGGAGCCACGCAGGTGGGATCAATGTGTTTGGGCAAATCACTGTGGAGACATTTGCATCCATTGTTGCTCATGAATTGGGGCATAACCTTGGAATGAATCATGATGATGGGAGAGAGTGTTTCTGTGGAGCAAAGAGCTGTATCATGAATTCAGGAGCATCCGGGTCCAGAAACTTTAGCAGTTGCAGTGCGGAGGACTTTGAGAAGTTAACGTTGAATAAGGGAGGAAGCTGCCTGCTTAACATCCCGAAGCCCGACGAAGCCTACAGCGCGCCCTCCTGTGGTAATAAGCTGGTGGACCCTGGAGAGGAGTGTGACTGCGGCACAGCGAAGGAGTGTGAGGTGGACCCATGCTGTGAAGGAAGCACTTGTAAGCTCAAGTCATTTGCTGAGTGTGCATATGGCGACTGTTGTAAAGATTGCCAGTTCCTTCCAGGAGGCTCCATGTGCAGAGGGAAGACCAGTGAGTGTGATGTTCCTGAGTACTGCAACGGTTCCTCTCAGTTCTGCCCGCCAGATGTCTTCATTCAGAATGGATATCCTTGCCAGAACAGCAAAGCCTACTGCTACAATGGCATGTGCCAATATTATGACGCGCAGTGTCAGGTCATCTTTGGTTCAAAGGCTAAGGCTGCCCCAAGAGATTGCTTCATTGAAGTCAATTCTAAAGGTGACAGATTTGGCAACTGTGGTTTCTCCGGCAGTGAGTACAAGAAGTGTGCCACTGGGAACGCGCTGTGTGGAAAGCTTCAATGCGAGAATGTACAGGACATGCCGGTGTTTGGAATAGTACCAGCTATCATTCAGACACCCAGTCGAGGCACCAAATGCTGGGGTGTGGATTTCCAGCTTGGTTCCGACGTTCCAGACCCAGGGATGGTGAATGAAGGCACCAAATGTGATGCTGGCAAGAGAAGAAGAGCTGTTCTACCACAGACCCGCTATGTGGAGCTGTTCATTGTTGTAGACAAGGAAAGGTACGACATGATGGGACGGAACCAGACTGCTGTGAGAGAAGAGATGATTCGCTTAGCAAACTACCTGGATAGCATGTACATCATGTTAAACATTCGAATTGTGCTGGTTGGACTAGAAATTTGGACAGACAGAAATCCTATCAATATAATTGGAGGAGCTGGAGATGTGCTGGGCAACTTTGTTCAGTGGCGGGAAAAGTTCCTTATAACTCGTTGGAGACACGACAGTGCACAGTTGGTTTTGAAGAAAGGCTTTGGTGGAACTGCAGGAATGGCGTTTGTAGGAACAGTATGTTCAAGGAGCCACGCAGGTGGGATCAATGTGTTTGGGCAAATCACTGTGGAGACATTTGCATCCATTGTTGCTCATGAATTGGGGCATAACCTTGGAATGAATCATGATGATGGGAGAGAGTGTTTCTGTGGAGCAAAGAGCTGTATCATGAATTCAGGAGCATCCGGGTCCAGAAACTTTAGCAGTTGCAGTGCGGAGGACTTTGAGAAGTTAACGTTGAATAAGGGAGGAAGCTGCCTGCTTAACATCCCGAAGCCCGACGAAGCCTACAGCGCGCCCTCCTGTGGTAATAAGCTGGTGGACCCTGGAGAGGAGTGTGACTGCGGCACAGCGAAGGAGTGTGAGGTGGACCCATGCTGTGAAGGAAGCACTTGTAAGCTCAAGTCATTTGCTGAGTGTGCATATGGCGACTGTTGTAAAGATTGCCAGTTCCTTCCAGGAGGCTCCATGTGCAGAGGGAAGACCAGTGAGTGTGATGTTCCTGAGTACTGCAACGGTTCCTCTCAGTTCTGCCCGCCAGATGTCTTCATTCAGAATGGATATCCTTGCCAGAACAGCAAAGCCTACTGCTACAATGGCATGTGCCAATATTATGACGCGCAGTGTCAGGTCATCTTTGGTTCAAAGGCTAAGGCTGCCCCAAGAGATTGCTTCATTGAAGTCAATTCTAAAGGTGACAGATTTGGCAACTGTGGTTTCTCCGGCAGTGAGTACAAGAAGTGTGCCACTGGGAACGCGCTGTGTGGAAAGCTTCAATGCGAGAATGTACAGGACATGCCGGTGTTTGGAATAGTACCAGCTATCATTCAGACACCCAGTCGAGGCACCAAATGCTGGGGTGTGGATTTCCAGCTTGGTTCCGACGTTCCAGACCCAGGGATGGTGAATGAAGGCACCAAATGTGATGCTGGCAAG
Peptide sequence:
MMGRNQTAVREEMIRLANYLDSMYIMLNIRIVLVGLEIWTDRNPINIIGGAGDVLGNFVQWREKFLITRWRHDSAQLVLKKGFGGTAGMAFVGTVCSRSHAGGINVFGQITVETFASIVAHELGHNLGMNHDDGRECFCGAKSCIMNSGASGSRNFSSCSAEDFEKLTLNKGGSCLLNIPKPDEAYSAPSCGNKLVDPGEECDCGTAKECEVDPCCEGSTCKLKSFAECAYGDCCKDCQFLPGGSMCRGKTSECDVPEYCNGSSQFCPPDVFIQNGYPCQNSKAYCYNGMCQYYDAQCQVIFGSKAKAAPRDCFIEVNSKGDRFGNCGFSGSEYKKCATGNALCGKLQCENVQDMPVFGIVPAIIQTPSRGTKCWGVDFQLGSDVPDPGMVNEGTKCDAGKRRRAVLPQTRYVELFIVVDKERYDMMGRNQTAVREEMIRLANYLDSMYIMLNIRIVLVGLEIWTDRNPINIIGGAGDVLGNFVQWREKFLITRWRHDSAQLVLKKGFGGTAGMAFVGTVCSRSHAGGINVFGQITVETFASIVAHELGHNLGMNHDDGRECFCGAKSCIMNSGASGSRNFSSCSAEDFEKLTLNKGGSCLLNIPKPDEAYSAPSCGNKLVDPGEECDCGTAKECEVDPCCEGSTCKLKSFAECAYGDCCKDCQFLPGGSMCRGKTSECDVPEYCNGSSQFCPPDVFIQNGYPCQNSKAYCYNGMCQYYDAQCQVIFGSKAKAAPRDCFIEVNSKGDRFGNCGFSGSEYKKCATGNALCGKLQCENVQDMPVFGIVPAIIQTPSRGTKCWGVDFQLGSDVPDPGMVNEGTKCDAGK
IRESfinder result
IRESfinder score
0.40277371
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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