top of page
mmu_circSap130_734
Basic information of circular RNA
PanCircBase ID:
mmu_circSap130_734
mm39_Chr. Position ID:
chr18|31831574|31844787|+
Gene name:
Sap130
Transcript:
ENSMUST00000235017.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
16,17,18
Exon/intron offsets:
0,12676,13087
Genomic length:
13213
Exon/intron sizes in nt:
35,92,49,126
Flanking exon/introns:
chr18:31822555-31831574|chr18:31844787-31848393
Splice length:
734
Other database IDs:
circAtlas: mmu-Sap130_0004
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
TGCCAAACCTAAATCCGAAGTGCATGTGTCTATAGCCACTCCAGTTACAGTGTCCTTGGAGACCATATCCAATCAAAATGCCGAACAGCCTACCGTTGCTGTCCCTCCGACTGCCCAGCAGCCTCCACCGACCATTCCCAGCATGATTGCGGCAGCCAGTCCTCCATCCCAACCAGCCATTGCCCTTTCCACCATTCCCGGAGCCGTGCCTGTCACTCCACCCATCACCACCATTGCTGCCACACCAACGCTGTCAGCCCCAGTGGGCGGCACTCCTTCCACGGTCCTGGGGCCTCCTGTTCCTGAGATCAAAGTGAAGGAAGAAGCGGAGCCAGTGGACATCACCAGGCCTGTCTCCACAGTCCCTCCTCTGGCCACCAACACGGTGTCTCCATCTCTTGCTTTGCTGGCAAGCAACCTGTCCATGCCTCCAAGTGACCTCCCACCTGGTGCCTCCCCAAGGAAAAAGCCTCGAAAGCAGCAGCACGTGATCTCGACAGAGGAGGGGGATATGATGGAGACAAACAGCACTGACGATGAGAAGTCCGCTGCCAAGAGTCTCCTGGTAAAGGCTGAGAAGCGCAAGTCTCCTCCCAAAGAGTACATTGATGAGGAAGGTGTGAGGTATGTCCCAGTGCGACCCAGACCTCCCATTACTTTGCTACGTCACTATCGGAACCCCTGGAAAGCTGCTTATCACCACTTTCAGAGGTACAGTGACGTCCGGGTCAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGTCACTATCGGAACCCCTG
59.9
CGGTAGGCTGTTCGGCATTT
61.02
165
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGTCACTATCGGAACCCCTG
59.9
GGTAGGCTGTTCGGCATTTTG
60.14
164
PCR template sequence:
GTGCGACCCAGACCTCCCATTACTTTGCTACGTCACTATCGGAACCCCTGGAAAGCTGCTTATCACCACTTTCAGAGGTACAGTGACGTCCGGGTCAAAGTGCCAAACCTAAATCCGAAGTGCATGTGTCTATAGCCACTCCAGTTACAGTGTCCTTGGAGACCATATCCAATCAAAATGCCGAACAGCCTACCGTTGCT
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-298-5p(1), mmu-miR-149-5p(1), mmu-miR-705(1)
siRNAs for circular RNA silencing
Junction sequence
GTCCGGGTCAAAGTGCCAAACCTAAA
siRNA sets
TTTAGGTTTGGCACTTTGA, TTAGGTTTGGCACTTTGAC, GTTTGGCACTTTGACCCGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSAP130_734_ORF_1
1.2695
0.340255059
0.952538011
627
ORF sequence:
ATGATTGCGGCAGCCAGTCCTCCATCCCAACCAGCCATTGCCCTTTCCACCATTCCCGGAGCCGTGCCTGTCACTCCACCCATCACCACCATTGCTGCCACACCAACGCTGTCAGCCCCAGTGGGCGGCACTCCTTCCACGGTCCTGGGGCCTCCTGTTCCTGAGATCAAAGTGAAGGAAGAAGCGGAGCCAGTGGACATCACCAGGCCTGTCTCCACAGTCCCTCCTCTGGCCACCAACACGGTGTCTCCATCTCTTGCTTTGCTGGCAAGCAACCTGTCCATGCCTCCAAGTGACCTCCCACCTGGTGCCTCCCCAAGGAAAAAGCCTCGAAAGCAGCAGCACGTGATCTCGACAGAGGAGGGGGATATGATGGAGACAAACAGCACTGACGATGAGAAGTCCGCTGCCAAGAGTCTCCTGGTAAAGGCTGAGAAGCGCAAGTCTCCTCCCAAAGAGTACATTGATGAGGAAGGTGTGAGGTATGTCCCAGTGCGACCCAGACCTCCCATTACTTTGCTACGTCACTATCGGAACCCCTGGAAAGCTGCTTATCACCACTTTCAGAGGTACAGTGACGTCCGGGTCAAAGTGCCAAACCTAAATCCGAAGTGCATGTGTCTATAG
Peptide sequence:
MIAAASPPSQPAIALSTIPGAVPVTPPITTIAATPTLSAPVGGTPSTVLGPPVPEIKVKEEAEPVDITRPVSTVPPLATNTVSPSLALLASNLSMPPSDLPPGASPRKKPRKQQHVISTEEGDMMETNSTDDEKSAAKSLLVKAEKRKSPPKEYIDEEGVRYVPVRPRPPITLLRHYRNPWKAAYHHFQRYSDVRVKVPNLNPKCMCL
IRESfinder result
IRESfinder score
0.463016892
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page