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mmu_circSptan1_933
Basic information of circular RNA
PanCircBase ID:
mmu_circSptan1_933
mm39_Chr. Position ID:
chr2|29868388|29876551|+
Gene name:
Sptan1
Transcript:
ENSMUST00000113719.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
2,3,4,5,6,7
Exon/intron offsets:
0,1700,4783,5237,7788,8018
Genomic length:
8163
Exon/intron sizes in nt:
2,40,12,61,41,14,71,34,000
Flanking exon/introns:
chr2:29855797-29868388|chr2:29876551-29876789
Splice length:
933
Other database IDs:
CIRCpedia: MMU_CIRCpedia_15667, circAtlas: mmu-Sptan1_0043
CIRCpedia: HSA_CIRCpedia_366113
Human Ortholog IDs:
Mature spliced Sequence:
AAAATGGATCCAAGTGGGGTCAAAGTGCTGGAAACAGCCGAGGACATCCAGGAGAGACGACAGCAAGTCCTGGATCGGTACCACCGCTTCAAGGAGCTCTCTACCTTACGGCGTCAGAAGCTGGAGGATTCCTATCGGTTCCAGTTTTTTCAAAGAGATGCTGAGGAGTTGGAGAAGTGGATTCAGGAGAAGCTTCAAGTTGCATCTGATGAGAACTACAAAGACCCAACCAACTTGCAGGGAAAGCTGCAGAAGCACCAAGCCTTTGAAGCTGAAGTACAGGCTAACTCAGGAGCCATTGTGAAGCTGGACGAGACAGGAAACTTGATGATTTCTGAAGGGCACTTTGCATCTGAAACCATCCGGACACGTTTAATGGAGCTGCACCGGCAGTGGGAACTGCTTTTGGAGAAGATGCGGGAGAAAGGAATCAAACTGCTGCAGGCACAGAAGCTGGTGCAGTATTTGCGGGAGTGTGAGGATGTAATGGACTGGATCAATGACAAGGAAGCAATTGTGACTTCTGAGGAGCTGGGCCAGGACCTGGAGCATGTAGAGGTGCTACAGAAGAAGTTTGAAGAGTTTCAGACTGATCTGGCTGCTCATGAAGAAAGAGTTAATGAAGTGAGCCAGTTTGCTGCCAAACTCATCCAGGAGCAGCACCCGGAAGAGGAGCTGATCAAGACCAAGCAGGATGAGGTGAATGCAGCATGGCAGCGACTGAAAGGCCTGGCTCTTCAAAGGCAGGGCAAGCTGTTCGGTGCTGCTGAGGTCCAGCGCTTTAACAGGGATGTAGATGAGACCATTGGTTGGATTAAGGAGAAAGAGCAGTTAATGGCCTCTGATGACTTCGGCAGAGACTTAGCAAGTGTTCAAGCTCTGCTTCGAAAGCATGAGGGTCTGGAGAGAGATCTTGCTGCTCTAGAGGACAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATGGCCTCTGATGACTTCGG
59.53
ATGTCCTCGGCTGTTTCCAG
60.04
146
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATGGCCTCTGATGACTTCGG
59.53
CTGGATGTCCTCGGCTGTTT
60.04
150
PCR template sequence:
AATGGCCTCTGATGACTTCGGCAGAGACTTAGCAAGTGTTCAAGCTCTGCTTCGAAAGCATGAGGGTCTGGAGAGAGATCTTGCTGCTCTAGAGGACAAGAAAATGGATCCAAGTGGGGTCAAAGTGCTGGAAACAGCCGAGGACATCCAGGAGAGACGACAGCAAGTCCTGGATCGGTACCACCGCTTCAAGGAGCTCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
14
Interacting miRNAs (#binding sites)
mmu-miR-207(3), mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-93-5p(1), mmu-miR-200c-3p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-24-3p(1), mmu-miR-149-5p(1), mmu-miR-136-5p(1), mmu-miR-324-3p(1), mmu-miR-224-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-697(1)
siRNAs for circular RNA silencing
Junction sequence
TCTAGAGGACAAGAAAATGGATCCAA
siRNA sets
CATTTTCTTGTCCTCTAGA, ATCCATTTTCTTGTCCTCT, TTGGATCCATTTTCTTGTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSPTAN1_933_ORF_1
1.2378
0.466366696
0.999995739
1863
ORF sequence:
ATGGATCCAAGTGGGGTCAAAGTGCTGGAAACAGCCGAGGACATCCAGGAGAGACGACAGCAAGTCCTGGATCGGTACCACCGCTTCAAGGAGCTCTCTACCTTACGGCGTCAGAAGCTGGAGGATTCCTATCGGTTCCAGTTTTTTCAAAGAGATGCTGAGGAGTTGGAGAAGTGGATTCAGGAGAAGCTTCAAGTTGCATCTGATGAGAACTACAAAGACCCAACCAACTTGCAGGGAAAGCTGCAGAAGCACCAAGCCTTTGAAGCTGAAGTACAGGCTAACTCAGGAGCCATTGTGAAGCTGGACGAGACAGGAAACTTGATGATTTCTGAAGGGCACTTTGCATCTGAAACCATCCGGACACGTTTAATGGAGCTGCACCGGCAGTGGGAACTGCTTTTGGAGAAGATGCGGGAGAAAGGAATCAAACTGCTGCAGGCACAGAAGCTGGTGCAGTATTTGCGGGAGTGTGAGGATGTAATGGACTGGATCAATGACAAGGAAGCAATTGTGACTTCTGAGGAGCTGGGCCAGGACCTGGAGCATGTAGAGGTGCTACAGAAGAAGTTTGAAGAGTTTCAGACTGATCTGGCTGCTCATGAAGAAAGAGTTAATGAAGTGAGCCAGTTTGCTGCCAAACTCATCCAGGAGCAGCACCCGGAAGAGGAGCTGATCAAGACCAAGCAGGATGAGGTGAATGCAGCATGGCAGCGACTGAAAGGCCTGGCTCTTCAAAGGCAGGGCAAGCTGTTCGGTGCTGCTGAGGTCCAGCGCTTTAACAGGGATGTAGATGAGACCATTGGTTGGATTAAGGAGAAAGAGCAGTTAATGGCCTCTGATGACTTCGGCAGAGACTTAGCAAGTGTTCAAGCTCTGCTTCGAAAGCATGAGGGTCTGGAGAGAGATCTTGCTGCTCTAGAGGACAAGAAAATGGATCCAAGTGGGGTCAAAGTGCTGGAAACAGCCGAGGACATCCAGGAGAGACGACAGCAAGTCCTGGATCGGTACCACCGCTTCAAGGAGCTCTCTACCTTACGGCGTCAGAAGCTGGAGGATTCCTATCGGTTCCAGTTTTTTCAAAGAGATGCTGAGGAGTTGGAGAAGTGGATTCAGGAGAAGCTTCAAGTTGCATCTGATGAGAACTACAAAGACCCAACCAACTTGCAGGGAAAGCTGCAGAAGCACCAAGCCTTTGAAGCTGAAGTACAGGCTAACTCAGGAGCCATTGTGAAGCTGGACGAGACAGGAAACTTGATGATTTCTGAAGGGCACTTTGCATCTGAAACCATCCGGACACGTTTAATGGAGCTGCACCGGCAGTGGGAACTGCTTTTGGAGAAGATGCGGGAGAAAGGAATCAAACTGCTGCAGGCACAGAAGCTGGTGCAGTATTTGCGGGAGTGTGAGGATGTAATGGACTGGATCAATGACAAGGAAGCAATTGTGACTTCTGAGGAGCTGGGCCAGGACCTGGAGCATGTAGAGGTGCTACAGAAGAAGTTTGAAGAGTTTCAGACTGATCTGGCTGCTCATGAAGAAAGAGTTAATGAAGTGAGCCAGTTTGCTGCCAAACTCATCCAGGAGCAGCACCCGGAAGAGGAGCTGATCAAGACCAAGCAGGATGAGGTGAATGCAGCATGGCAGCGACTGAAAGGCCTGGCTCTTCAAAGGCAGGGCAAGCTGTTCGGTGCTGCTGAGGTCCAGCGCTTTAACAGGGATGTAGATGAGACCATTGGTTGGATTAAGGAGAAAGAGCAGTTAATGGCCTCTGATGACTTCGGCAGAGACTTAGCAAGTGTTCAAGCTCTGCTTCGAAAGCATGAGGGTCTGGAGAGAGATCTTGCTGCTCTAGAGGACAAG
Peptide sequence:
MDPSGVKVLETAEDIQERRQQVLDRYHRFKELSTLRRQKLEDSYRFQFFQRDAEELEKWIQEKLQVASDENYKDPTNLQGKLQKHQAFEAEVQANSGAIVKLDETGNLMISEGHFASETIRTRLMELHRQWELLLEKMREKGIKLLQAQKLVQYLRECEDVMDWINDKEAIVTSEELGQDLEHVEVLQKKFEEFQTDLAAHEERVNEVSQFAAKLIQEQHPEEELIKTKQDEVNAAWQRLKGLALQRQGKLFGAAEVQRFNRDVDETIGWIKEKEQLMASDDFGRDLASVQALLRKHEGLERDLAALEDKKMDPSGVKVLETAEDIQERRQQVLDRYHRFKELSTLRRQKLEDSYRFQFFQRDAEELEKWIQEKLQVASDENYKDPTNLQGKLQKHQAFEAEVQANSGAIVKLDETGNLMISEGHFASETIRTRLMELHRQWELLLEKMREKGIKLLQAQKLVQYLRECEDVMDWINDKEAIVTSEELGQDLEHVEVLQKKFEEFQTDLAAHEERVNEVSQFAAKLIQEQHPEEELIKTKQDEVNAAWQRLKGLALQRQGKLFGAAEVQRFNRDVDETIGWIKEKEQLMASDDFGRDLASVQALLRKHEGLERDLAALEDK
IRESfinder result
IRESfinder score
0.271550771
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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