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mmu_circSyt14_1151
Basic information of circular RNA
PanCircBase ID:
mmu_circSyt14_1151
mm39_Chr. Position ID:
chr1|192612785|192709325|-
Gene name:
Syt14
Transcript:
ENSMUST00000195354.6
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
6,5,4,3,2
Exon/intron offsets:
0,2636,49868,56240,96492
Genomic length:
96540
Exon/intron sizes in nt:
450,272,216,165,48
Flanking exon/introns:
chr1:192584249-192612785|chr1:192709325-192717930
Splice length:
1151
Other database IDs:
circAtlas: mmu-Syt14_0007
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_140289
Human Ortholog IDs:
Mature spliced Sequence:
GTGGAGAGAGAACCTGTGGAGTACATGAACTTATCTGTATTAGAAAAGTCTCTCCAGAGGCGGTTGGATTTTTGTCAGCAGTTGGGGTGTTTATTGTCTTGATGCTGCTCCTTTTTCTCTATATTAATAAGAAGTTCTGTTTTGAAAATGTTGGAGGGTTTCCAGATCTTGGTTCAGGATACAATACACGGACGAATTCACAAGATAAAATGTATAATTCTTACATGGACAGAGATGAGCCTGGTTCATCCTCTGAAAGTGAAGATGAAGCACTGGGTAAATATCACGAGGCCTTATCCAGAACACACAATTCCAGATGGCCATTGGTAGATTCTAGACAAAAGAGCTATGCCTGGGAAACAAGGCAGAAGTACAGCCCCCTGTCTGCAGAGTACGACGGGTACAGCACTGAGGCATCCATGGAGGACGGAAACTGCATTCAGAGAATGAGGAGGACACCTCCGCTGGATGAGCTGCAGCCGCCGCCTTACCAAGACGACAGCGGTTCTCCTCACCTCTCATGCACACCTTCCGAAATTGGGGATGCCAAGTGTGAGATTTCCCACTGCAGCAATAGCCCAAGGTGTTCTTTCAACAAGTGCCCCAGTGAAGGAAGCACGGGTCACGAGGCCGAGAGCTATCACAATAAAGGATATGAAGATGATGTACCTAGCGACAGCACAGCAGTCCTTAGCCCTGAAGACATGTCAGCTCAAGGATCCTCCTCACAGCTTCCTAAACCTTTTGATCCAGAGCCAGAAGCTAAATATGGCACATTGGATGTGACTTTCGACTATGACTCTGAAAGACAGAAGCTCCTGGTAACGGTGACAGCTGTCACAGACATTCCAACATATAACAGGACAGGTGGCAACTCGTGGCAGGTACACCTTGTTCTTCTACCTATAAAAAAACAGAGAGCCAAAACCAGCATCCAGAGAGGACCATGCCCTGTCTTCACAGAAACATTCAAATTTAACCACGTTGAATCCGAGATGATTGGAAACTATGCAGTTAGGTTTAGACTATATGGTGTCCATCGCATGAAGAAAGAAAAGATTGTGGGGGAAAAGATTTTTTATTTAACAAAGTTGAATCTTCAAGGGAAAATGTCGTTACCGGTGATACTGGAACCTTCATACAATCCTTCT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGGGAAAATGTCGTTACCGGT
59.65
AACACCCCAACTGCTGACAA
60.03
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGGGAAAATGTCGTTACCGGT
59.65
AAACACCCCAACTGCTGACA
60.03
141
PCR template sequence:
AGAAAAGATTGTGGGGGAAAAGATTTTTTATTTAACAAAGTTGAATCTTCAAGGGAAAATGTCGTTACCGGTGATACTGGAACCTTCATACAATCCTTCTGTGGAGAGAGAACCTGTGGAGTACATGAACTTATCTGTATTAGAAAAGTCTCTCCAGAGGCGGTTGGATTTTTGTCAGCAGTTGGGGTGTTTATTGTCTT
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-30a-5p(1), mmu-miR-30c-5p(1), mmu-miR-216a-5p(1), mmu-miR-30d-5p(1), mmu-miR-149-5p(1), mmu-miR-153-3p(1), mmu-miR-362-5p(1), mmu-miR-532-5p(1), mmu-miR-484(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATACAATCCTTCTGTGGAGAGAGAAC
siRNA sets
TTCTCTCTCCACAGAAGGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSYT14_1151_ORF_1
0.7158
0.085739573
0.990968506
1152
ORF sequence:
ATGCTGCTCCTTTTTCTCTATATTAATAAGAAGTTCTGTTTTGAAAATGTTGGAGGGTTTCCAGATCTTGGTTCAGGATACAATACACGGACGAATTCACAAGATAAAATGTATAATTCTTACATGGACAGAGATGAGCCTGGTTCATCCTCTGAAAGTGAAGATGAAGCACTGGGTAAATATCACGAGGCCTTATCCAGAACACACAATTCCAGATGGCCATTGGTAGATTCTAGACAAAAGAGCTATGCCTGGGAAACAAGGCAGAAGTACAGCCCCCTGTCTGCAGAGTACGACGGGTACAGCACTGAGGCATCCATGGAGGACGGAAACTGCATTCAGAGAATGAGGAGGACACCTCCGCTGGATGAGCTGCAGCCGCCGCCTTACCAAGACGACAGCGGTTCTCCTCACCTCTCATGCACACCTTCCGAAATTGGGGATGCCAAGTGTGAGATTTCCCACTGCAGCAATAGCCCAAGGTGTTCTTTCAACAAGTGCCCCAGTGAAGGAAGCACGGGTCACGAGGCCGAGAGCTATCACAATAAAGGATATGAAGATGATGTACCTAGCGACAGCACAGCAGTCCTTAGCCCTGAAGACATGTCAGCTCAAGGATCCTCCTCACAGCTTCCTAAACCTTTTGATCCAGAGCCAGAAGCTAAATATGGCACATTGGATGTGACTTTCGACTATGACTCTGAAAGACAGAAGCTCCTGGTAACGGTGACAGCTGTCACAGACATTCCAACATATAACAGGACAGGTGGCAACTCGTGGCAGGTACACCTTGTTCTTCTACCTATAAAAAAACAGAGAGCCAAAACCAGCATCCAGAGAGGACCATGCCCTGTCTTCACAGAAACATTCAAATTTAACCACGTTGAATCCGAGATGATTGGAAACTATGCAGTTAGGTTTAGACTATATGGTGTCCATCGCATGAAGAAAGAAAAGATTGTGGGGGAAAAGATTTTTTATTTAACAAAGTTGAATCTTCAAGGGAAAATGTCGTTACCGGTGATACTGGAACCTTCATACAATCCTTCTGTGGAGAGAGAACCTGTGGAGTACATGAACTTATCTGTATTAGAAAAGTCTCTCCAGAGGCGGTTGGATTTTTGTCAGCAGTTGGGGTGTTTATTGTCTTGA
Peptide sequence:
MLLLFLYINKKFCFENVGGFPDLGSGYNTRTNSQDKMYNSYMDRDEPGSSSESEDEALGKYHEALSRTHNSRWPLVDSRQKSYAWETRQKYSPLSAEYDGYSTEASMEDGNCIQRMRRTPPLDELQPPPYQDDSGSPHLSCTPSEIGDAKCEISHCSNSPRCSFNKCPSEGSTGHEAESYHNKGYEDDVPSDSTAVLSPEDMSAQGSSSQLPKPFDPEPEAKYGTLDVTFDYDSERQKLLVTVTAVTDIPTYNRTGGNSWQVHLVLLPIKKQRAKTSIQRGPCPVFTETFKFNHVESEMIGNYAVRFRLYGVHRMKKEKIVGEKIFYLTKLNLQGKMSLPVILEPSYNPSVEREPVEYMNLSVLEKSLQRRLDFCQQLGCLLS
IRESfinder result
IRESfinder score
0.570037113
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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