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mmu_circSbf2_954
Basic information of circular RNA
PanCircBase ID:
mmu_circSbf2_954
mm39_Chr. Position ID:
chr7|109998502|110041574|-
Gene name:
Sbf2
Transcript:
ENSMUST00000164759.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
17,16,15,14,13,12,11,10
Exon/intron offsets:
0,21496,23149,28892,39544,41654,42156,42994
Genomic length:
43072
Exon/intron sizes in nt:
69,150,110,205,99,129,114,78
Flanking exon/introns:
chr7:109977341-109998502|chr7:110041574-110046220
Splice length:
954
Other database IDs:
circBase: mmu_circ_0013763, CIRCpedia: MMU_CIRCpedia_2868, circAtlas: mmu-Sbf2_0032
circAtlas: hsa-SBF2_0040
Human Ortholog IDs:
Mature spliced Sequence:
ATCTTGCACCCGGATTTGGAAGTAGCAGATCATGCCTTCCCTCCTCCACGAACAGCTTTATCCCACTCAAAAATGCTGGATAAAGAAGTTCGAGCAGTTTTCCTTAGGTTATTTGCACAACTGTTCCAAGGATACAGGTCATGCCTCCAGCTTATCCGGATCCATGCCGAGCCTGTGATACACTTTCACAAAACAGCTTTCTTGGGGCAGCGTGGCTTGGTTGAGAATGATTTCCTCACTAAAGTGCTCAATGGAATGGCATTTGCAGGTTTTGTTTCAGAAAGAGGACCTCCCTATAGAGCCTGTGATCTCTTTGATGAGTTGGTAGCTTTTGAAGTAGAAAGAATTAAAGTTGAAGAAAAGAATCCACTGAAGATGATAAAGCACATCAGAGAACTTGCTGAGCAGCTATTCAAAAACGAGAATCCAAACCCTCATATGGCATTCCAGAAAGTTCCACGTCCAACAGAAGGATCCCACTTGAGAGTTCATATTCTTCCTTTTCCAAAGATTAATGAAGCCCGGGTTCAAGAACTAATACAGGAAAATCTTGCTAAGAACCAGAATGCACCTCCTGCTACACGAATAGAAAAGAAATGTGTAGTGCCAGCAGGTCCACCCGTTGTTTCAATAATGGAAAAAGTGATAACAGTTTTTAACAGTGCACAGAGACTGGAAGTTGTTAGAAACTGCATCTCATTCATATTTGAAAATAAAACTTTGGAAACTGAGAAGACCCTTCCTGCTGCCTTGAGGGCCCTTAAAGGAAAAGCAGCAAGACAGTGTCTCACTGATGAACTGGGCTTGCACGTTCAGCAGAACCGGGCAATACTGGACCATCAACAGTTTGACTACATAATAAGGATGATGAACTGTACTCTACAGGATTGTTCAAGTTTAGAAGAATATAACATCGCTGCAGCATTACTCCCCCTGACCAGTGCTTTCTATAGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CATCGCTGCAGCATTACTCC
59.41
CTGCTCGAACTTCTTTATCCAGC
59.69
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACATCGCTGCAGCATTACTC
58.71
TGCTCGAACTTCTTTATCCAGC
58.74
140
PCR template sequence:
CATAATAAGGATGATGAACTGTACTCTACAGGATTGTTCAAGTTTAGAAGAATATAACATCGCTGCAGCATTACTCCCCCTGACCAGTGCTTTCTATAGGATCTTGCACCCGGATTTGGAAGTAGCAGATCATGCCTTCCCTCCTCCACGAACAGCTTTATCCCACTCAAAAATGCTGGATAAAGAAGTTCGAGCAGTTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-320-3p(2), mmu-miR-19b-3p(1), mmu-miR-19a-3p(1), mmu-miR-96-5p(1), mmu-miR-218-5p(1), mmu-miR-382-5p(1), mmu-miR-370-3p(1), mmu-miR-362-5p(1), mmu-miR-452-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGCTTTCTATAGGATCTTGCACCCGG
siRNA sets
CAAGATCCTATAGAAAGCA, GCAAGATCCTATAGAAAGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSBF2_954_ORF_1
0.9869
0.032518517
0.999951297
1836
ORF sequence:
ATGCTGGATAAAGAAGTTCGAGCAGTTTTCCTTAGGTTATTTGCACAACTGTTCCAAGGATACAGGTCATGCCTCCAGCTTATCCGGATCCATGCCGAGCCTGTGATACACTTTCACAAAACAGCTTTCTTGGGGCAGCGTGGCTTGGTTGAGAATGATTTCCTCACTAAAGTGCTCAATGGAATGGCATTTGCAGGTTTTGTTTCAGAAAGAGGACCTCCCTATAGAGCCTGTGATCTCTTTGATGAGTTGGTAGCTTTTGAAGTAGAAAGAATTAAAGTTGAAGAAAAGAATCCACTGAAGATGATAAAGCACATCAGAGAACTTGCTGAGCAGCTATTCAAAAACGAGAATCCAAACCCTCATATGGCATTCCAGAAAGTTCCACGTCCAACAGAAGGATCCCACTTGAGAGTTCATATTCTTCCTTTTCCAAAGATTAATGAAGCCCGGGTTCAAGAACTAATACAGGAAAATCTTGCTAAGAACCAGAATGCACCTCCTGCTACACGAATAGAAAAGAAATGTGTAGTGCCAGCAGGTCCACCCGTTGTTTCAATAATGGAAAAAGTGATAACAGTTTTTAACAGTGCACAGAGACTGGAAGTTGTTAGAAACTGCATCTCATTCATATTTGAAAATAAAACTTTGGAAACTGAGAAGACCCTTCCTGCTGCCTTGAGGGCCCTTAAAGGAAAAGCAGCAAGACAGTGTCTCACTGATGAACTGGGCTTGCACGTTCAGCAGAACCGGGCAATACTGGACCATCAACAGTTTGACTACATAATAAGGATGATGAACTGTACTCTACAGGATTGTTCAAGTTTAGAAGAATATAACATCGCTGCAGCATTACTCCCCCTGACCAGTGCTTTCTATAGGATCTTGCACCCGGATTTGGAAGTAGCAGATCATGCCTTCCCTCCTCCACGAACAGCTTTATCCCACTCAAAAATGCTGGATAAAGAAGTTCGAGCAGTTTTCCTTAGGTTATTTGCACAACTGTTCCAAGGATACAGGTCATGCCTCCAGCTTATCCGGATCCATGCCGAGCCTGTGATACACTTTCACAAAACAGCTTTCTTGGGGCAGCGTGGCTTGGTTGAGAATGATTTCCTCACTAAAGTGCTCAATGGAATGGCATTTGCAGGTTTTGTTTCAGAAAGAGGACCTCCCTATAGAGCCTGTGATCTCTTTGATGAGTTGGTAGCTTTTGAAGTAGAAAGAATTAAAGTTGAAGAAAAGAATCCACTGAAGATGATAAAGCACATCAGAGAACTTGCTGAGCAGCTATTCAAAAACGAGAATCCAAACCCTCATATGGCATTCCAGAAAGTTCCACGTCCAACAGAAGGATCCCACTTGAGAGTTCATATTCTTCCTTTTCCAAAGATTAATGAAGCCCGGGTTCAAGAACTAATACAGGAAAATCTTGCTAAGAACCAGAATGCACCTCCTGCTACACGAATAGAAAAGAAATGTGTAGTGCCAGCAGGTCCACCCGTTGTTTCAATAATGGAAAAAGTGATAACAGTTTTTAACAGTGCACAGAGACTGGAAGTTGTTAGAAACTGCATCTCATTCATATTTGAAAATAAAACTTTGGAAACTGAGAAGACCCTTCCTGCTGCCTTGAGGGCCCTTAAAGGAAAAGCAGCAAGACAGTGTCTCACTGATGAACTGGGCTTGCACGTTCAGCAGAACCGGGCAATACTGGACCATCAACAGTTTGACTACATAATAAGGATGATGAACTGTACTCTACAGGATTGTTCAAGTTTAGAAGAATATAACATCGCTGCAGCATTACTCCCCCTGACCAGTGCTTTCTATAGG
Peptide sequence:
MLDKEVRAVFLRLFAQLFQGYRSCLQLIRIHAEPVIHFHKTAFLGQRGLVENDFLTKVLNGMAFAGFVSERGPPYRACDLFDELVAFEVERIKVEEKNPLKMIKHIRELAEQLFKNENPNPHMAFQKVPRPTEGSHLRVHILPFPKINEARVQELIQENLAKNQNAPPATRIEKKCVVPAGPPVVSIMEKVITVFNSAQRLEVVRNCISFIFENKTLETEKTLPAALRALKGKAARQCLTDELGLHVQQNRAILDHQQFDYIIRMMNCTLQDCSSLEEYNIAAALLPLTSAFYRILHPDLEVADHAFPPPRTALSHSKMLDKEVRAVFLRLFAQLFQGYRSCLQLIRIHAEPVIHFHKTAFLGQRGLVENDFLTKVLNGMAFAGFVSERGPPYRACDLFDELVAFEVERIKVEEKNPLKMIKHIRELAEQLFKNENPNPHMAFQKVPRPTEGSHLRVHILPFPKINEARVQELIQENLAKNQNAPPATRIEKKCVVPAGPPVVSIMEKVITVFNSAQRLEVVRNCISFIFENKTLETEKTLPAALRALKGKAARQCLTDELGLHVQQNRAILDHQQFDYIIRMMNCTLQDCSSLEEYNIAAALLPLTSAFYR
IRESfinder result
IRESfinder score
0.709863791
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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