top of page
mmu_ciStat5b_971
Basic information of circular RNA
PanCircBase ID:
mmu_ciStat5b_971
mm39_Chr. Position ID:
chr11|100678223|100679194|-
Gene name:
Stat5b
Transcript:
ENSMUST00000107358.9
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
15
Exon/intron offsets:
0
Genomic length:
971
Exon/intron sizes in nt:
971
Flanking exon/introns:
chr11:100678205-100679194
Splice length:
971
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGAGTACCTCGCCCTTTTTTGAGACAGGGTTTGGCTTTGAGTCCCAAGTCAGCTGCTTTGTCACAAGATGACTCTAACACGTCTTACTGAGAATATATTGTTTGTTGGAGACAGACCTAATTACAAGAATCGCTAACATAGCCATGACACAGCTGCTCGGAAGGCAGCCTGTGAGCAACCTTATTATGGGAAATGCTGAATTGTAGCCCTAGCATGGGTGTCGGGCAGAGTCGCTGCCACTTCCCTTTTAAAACGTTTGCCTTATTGTTACTCAGCCTGGCGCTCCTTTCCGTCCTTCTGTGCATCCAAGATTCTCTAATTAATGCCAGGTGTTGCTGCTAACATTGCCACCTAAGAATGACCATTCCTTCCTTAGTCTGGCCCTCACACTGAAGTAGAGTAGCTTGCTACTTTGTCTATTCAGTGTTTTAAACATTCTACCTGCTTGTTCTAGCTCTCAGGCTTTCCCTGGCTGCAGGTGTGCTTCCTAGAAAATGAGACTGGGGGGGTCCCTAAGAGCTACTTCTTTTCTTTCCCTTATTTTTTTTATTGAATTATTTTGTATGTGGGTGTTTTGCCCCCATGTTTCTCTGTGTACCACATGTATGCAGTGCCCTAGAACTGGAATTATGGATGGTCGTGAACCATCATGTGGGTGCTGGGGATTGAACCCCAGTCTGCTGCAAGAACAAGTGCTCTTAACTGCTGAGCCATCTCTCTAGCTCCAGGGCTGTTGCTTTTAGACACTGGGAGGACTCCACTTGAACTTGAGCCCACTGAGGTCACTGGGTCTCTAGGGGAATGATGTAGCATCTGCTTATGTACCGGGACATCCAAGAAGTCCCCGTTGGCATCCCGAGGCCATCTGGGGATGAGCATTTCTGGTGGCATGACTTCAGTGTGGGGCTTAAATCTTCAGTGTGTGGACTTTAAGACCTCACATTTGGAAACCATGGTTAGAATGTGGTTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CATGACTTCAGTGTGGGGCT
59.96
AAGCAGCTGACTTGGGACTC
59.96
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CATGACTTCAGTGTGGGGCT
59.96
ACAAAGCAGCTGACTTGGGA
59.82
144
PCR template sequence:
GATGAGCATTTCTGGTGGCATGACTTCAGTGTGGGGCTTAAATCTTCAGTGTGTGGACTTTAAGACCTCACATTTGGAAACCATGGTTAGAATGTGGTTGGTGAGTACCTCGCCCTTTTTTGAGACAGGGTTTGGCTTTGAGTCCCAAGTCAGCTGCTTTGTCACAAGATGACTCTAACACGTCTTACTGAGAATATATT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
14
Interacting miRNAs (#binding sites)
mmu-miR-141-3p(1), mmu-miR-199a-5p(1), mmu-miR-221-3p(1), mmu-miR-31-5p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-222-3p(1), mmu-miR-185-5p(1), mmu-miR-339-5p(1), mmu-miR-495-3p(1), mmu-miR-494-3p(1), mmu-miR-182-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-452-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TAGAATGTGGTTGGTGAGTACCTCGC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CISTAT5B_971_ORF_3
0.6677
-0.121505947
0.035242545
171
ORF sequence:
ATGAGCATTTCTGGTGGCATGACTTCAGTGTGGGGCTTAAATCTTCAGTGTGTGGACTTTAAGACCTCACATTTGGAAACCATGGTTAGAATGTGGTTGGTGAGTACCTCGCCCTTTTTTGAGACAGGGTTTGGCTTTGAGTCCCAAGTCAGCTGCTTTGTCACAAGATGA
Peptide sequence:
MSISGGMTSVWGLNLQCVDFKTSHLETMVRMWLVSTSPFFETGFGFESQVSCFVTR
IRESfinder result
IRESfinder score
0.803429785
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page