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mmu_circJcad_331
Basic information of circular RNA
PanCircBase ID:
mmu_circJcad_331
mm39_Chr. Position ID:
chr18|4649074|4649405|+
Gene name:
Jcad
Transcript:
ENSMUST00000037029.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
2
Exon/intron offsets:
0
Genomic length:
331
Exon/intron sizes in nt:
331
Flanking exon/introns:
chr18:4635031-4649074|chr18:4649405-4672514
Splice length:
331
Other database IDs:
CIRCpedia: MMU_CIRCpedia_20885, circAtlas: mmu-9430020K01Rik_0001
circAtlas: hsa-KIAA1462_0002, CIRCpedia: HSA_CIRCpedia_1417
Human Ortholog IDs:
Mature spliced Sequence:
TGATGGGTCCTGCCACCGTGATGGTTGAAGCTTTTGAGGTTTGATGACGCTGCAGCATGTATAGTGTGGAAGATCTCCTGATTTCTCATGGATACAAACCAGCCCGAGATGCCGCAGCACCATGTGAGGACAAATCAGAGAGATGCAGGTCGACAAGGACAGGACCCCGAGCTGGCCAAGGCCTATTGAATGGGTACAAGGATGGCGCTACAGCCCATACGCACAGTAGGACATCCCTGGGGACAGGACACGTGAGCAACTCTGAAAACCGCATCAGCAGGCCAAGAGGCCACAGGGAGCACCAAAGCACTTCTAGAACTCCTGAGGCACG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGACACGTGAGCAACTCTGA
59.97
TACATGCTGCAGCGTCATCA
60.11
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGGACACGTGAGCAACTCTG
59.97
TACATGCTGCAGCGTCATCA
60.11
148
PCR template sequence:
CATCCCTGGGGACAGGACACGTGAGCAACTCTGAAAACCGCATCAGCAGGCCAAGAGGCCACAGGGAGCACCAAAGCACTTCTAGAACTCCTGAGGCACGTGATGGGTCCTGCCACCGTGATGGTTGAAGCTTTTGAGGTTTGATGACGCTGCAGCATGTATAGTGTGGAAGATCTCCTGATTTCTCATGGATACAAACC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-210-3p(1), mmu-miR-9-5p(1), mmu-miR-370-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTCCTGAGGCACGTGATGGGTCCTGC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCJCAD_331_ORF_1
0.8822
0.073801915
0.244211054
303
ORF sequence:
ATGTATAGTGTGGAAGATCTCCTGATTTCTCATGGATACAAACCAGCCCGAGATGCCGCAGCACCATGTGAGGACAAATCAGAGAGATGCAGGTCGACAAGGACAGGACCCCGAGCTGGCCAAGGCCTATTGAATGGGTACAAGGATGGCGCTACAGCCCATACGCACAGTAGGACATCCCTGGGGACAGGACACGTGAGCAACTCTGAAAACCGCATCAGCAGGCCAAGAGGCCACAGGGAGCACCAAAGCACTTCTAGAACTCCTGAGGCACGTGATGGGTCCTGCCACCGTGATGGTTGA
Peptide sequence:
MYSVEDLLISHGYKPARDAAAPCEDKSERCRSTRTGPRAGQGLLNGYKDGATAHTHSRTSLGTGHVSNSENRISRPRGHREHQSTSRTPEARDGSCHRDG
IRESfinder result
IRESfinder score
0.210263285
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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