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mmu_ciCapns1_1433
Basic information of circular RNA
PanCircBase ID:
mmu_ciCapns1_1433
mm39_Chr. Position ID:
chr7|29890153|29891586|-
Gene name:
Capns1
Transcript:
ENSMUST00000207082.2
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
4
Exon/intron offsets:
0
Genomic length:
1433
Exon/intron sizes in nt:
1433
Flanking exon/introns:
chr7:29890152-29891586
Splice length:
1433
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTATCCTTTTGGGGCCAGCCTGGAGAATGCCTTGGGTGAAGAGGGTCTTCTGGGAATATGTTGAGGACGGCCAAGGTGAAAGCCTTCATACTTGGAGGACACAGACTTACCTACGTGACCATAAATAATATCAGCTGCTACAGCTGGAACTTTACCTAGATTAGTGGATCCAACCTTTACAGATACCTTGCTAGATAAAGACGATGTAATAGGAAAGGAAACAGGCTCAGAGAGACACAGTGGTTTTGTCTCTGGCCAAACCGCCCAGAATTTACCTGACATGAATATCTGATCTTGAAAGCTAGTCTTGGGGCTACTTGAGGCTTGGATAGCAGAAACAGTCGTTTAGAGAATACATTGCAGGATAGGAATTTGGACTTGGGAGTTTTGGTTTGAGAATCTAAGCTTCGTTTATTTCTCTATTTACTTTTAAGCAATATTGATTGACTGACTGATTGATCAATTGATTGATTGATTTTTGAAACAGGATTTCTCTGCCTTGCCTGGCCTGGAATTTACTCTATAGACCTGGCTGGCCTCGAACTCAGAGATCTGCGCACCTCTGCCTCCCAAGTTGGGATTAAAGGAGTGTGCCACCACCATCCGATTACTAGTTATTTTATTGTACAGTATTTTTGGATTCTTGAGATGGGTCTCAAGAAGCCTAGGCTGGCCTTGAAGTCAGTGTGTAGCCAAAGCCAAACTCCTGATCTTCCTCTCAAGTGCTAGAGTTATAAGCATGTGCTACCATGCCCGCTTGGCTTATTTTACTTTTACTCACGTGCATGTGTGTGTGTCTGCATGTGCGTGCACGTGTTCTCAGAGGCCCGAGGACGTTGGACCCCCTGGAGATGGAATTCCAGGTGGTTGTGGGCTGCATGTTTTGAATTGTAGGAACCAAACCCAAGTCCTTTGCAAGAAGATTAAGCACTCCTGACTATCTAGCCTTCTAAGCTTATTTTATTTTTTTTAAAGATGTATTATTTATGATGTATACAGTGTTCTGCCTGCATGTATGCCTGTAGGTCAGTAGAGGCCACCAGATCTCATTATAGATGGTTATGAGCCACCATGTGGTTGCTGGGAATTGAACTTGGGACCTCTGGAAGAGAGGGGGCTCTTAACCCCTGAGCCATCTCTCCAGCCCTTATTTTATTTTTTAAAGTACGAATTAGGGTTAATCCCAGTACTTAGGAGGCAGAGGCAGGTGAATCTCTGAGTTGGAGACCAGCCTGGTCTATAGAGCAAGTTCCAGGAAAGCCAGAGCTGCATAGAGAAACTTTGTCGTGAAAAGACCAAAAGAAAAAAGAAAAGAAAAGAAAAGAAAAGAAAAGAAAAGAAAAGGGAGAATGGAAGAAAGAAAAGTTAGCATTTTGGCATTCACACACACACACATTGCATTTTGTCACTTGGTTCTTAACAACCTCTTGTTA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGCATTCACACACACACACA
59.26
CTTTCACCTTGGCCGTCCTC
60.96
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGCATTCACACACACACAC
59.26
CTTTCACCTTGGCCGTCCTC
60.96
141
PCR template sequence:
GAAAAGAAAAGGGAGAATGGAAGAAAGAAAAGTTAGCATTTTGGCATTCACACACACACACATTGCATTTTGTCACTTGGTTCTTAACAACCTCTTGTTAGTATCCTTTTGGGGCCAGCCTGGAGAATGCCTTGGGTGAAGAGGGTCTTCTGGGAATATGTTGAGGACGGCCAAGGTGAAAGCCTTCATACTTGGAGGAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
20
Interacting miRNAs (#binding sites)
mmu-miR-137-3p(1), mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-429-3p(1), mmu-miR-200b-3p(1), mmu-miR-200c-3p(1), mmu-miR-26a-5p(1), mmu-miR-211-5p(1), mmu-miR-298-5p(1), mmu-miR-222-3p(1), mmu-miR-709(1), mmu-miR-26b-5p(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-466p-5p(1), mmu-miR-129-5p(1), mmu-miR-369-3p(1), mmu-miR-3105-3p(1), mmu-miR-574-5p(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CAACCTCTTGTTAGTATCCTTTTGGG
siRNA sets
AAAGGATACTAACAAGAGG,AAAAGGATACTAACAAGAG,AAGGATACTAACAAGAGGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CICAPNS1_1433_ORF_5
0.6368
-0.363769666
0.008787847
123
ORF sequence:
ATGGAAGAAAGAAAAGTTAGCATTTTGGCATTCACACACACACACATTGCATTTTGTCACTTGGTTCTTAACAACCTCTTGTTAGTATCCTTTTGGGGCCAGCCTGGAGAATGCCTTGGGTGA
Peptide sequence:
MEERKVSILAFTHTHIAFCHLVLNNLLLVSFWGQPGECLG
IRESfinder result
IRESfinder score
0.79950334
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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