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mmu_circ2210408I21Rik_1019
Basic information of circular RNA
PanCircBase ID:
mmu_circ2210408I21Rik_1019
mm39_Chr. Position ID:
chr13|77407959|77418063|+
Gene name:
2210408I21Rik
Transcript:
ENSMUST00000168779.3
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
7,8,9,10,11
Exon/intron offsets:
0,2048,3691,7821,9921
Genomic length:
10104
Exon/intron sizes in nt:
22,82,66,15,11,91,183
Flanking exon/introns:
chr13:77402336-77407959|chr13:77418063-77429160
Splice length:
1019
Other database IDs:
circAtlas: mmu-2210408I21Rik_0016
Human Ortholog IDs:
Mature spliced Sequence:
GCTACTTTACTAGAGTTTGGCTGGAGAAATGCTTTTAAAGAAGTGCCTCTTGCCATAGCACACTGCATATCTGCAGCCATTGAAGGGTTTTCCACTCAAGTTCTCCAGCAGGAACAAACTGAAAGGACCTCATCTGTGAGCTACACTATAAACCTTGTAAATGTCCCACAACTTTGTCCAGAAGGTCACATATTTCCAGAGGAGGAGCAACCAAAGAGAGTTGCCAAGTTTTGTTCTGACATCATAGAAAAGCTTGATACAATGCTTCTCCTGGCCCTGGCATGCCGAGATGATTCTCCTCAGGAAATCAAAGAGAACCTGGTAGAGGCCTACAGTAAAGTGGCAACAGCTGTCCTGGAAAGACTGCAGGAGAGAGGAAAGGAGGTTCCTTCCCGAGCACCACTGAAGAACCTGCACAGCATCCTGTCCTCAGCAACGTATGTCTCTCAGCGGTTCACTCACTATGATAATCTGATGAAAGAGACAACTAAGAAACCCATATTCCTGGTGCCTGTCCAGCGCTATCAGGAATTCATCAACACTGTCCAGTTTCAGGTTACGGACTACTGCGCCAGAGTTTGTGCTATGAGCATTTTACAGGATGCTGAGAGCCACCACTGGGATGACTACAAAGCTTTTTATGAGGGGGAAAGATGCTCCTTCGCCATCCAGATGTGGCATTACTTCAGCTTGGCTCTGCATCATGATCTCTGGACCATACTGCCCCCTAAGCTGGCCCAGGAGATTCTAGCAGAGATGCTGGAGAAATCCTTGGGTCTACTTGCCTCCAGATATGCTCGGGCCCACCCCAGTCCTAAGAGAACTGCACAGATAAGACTTGATGTCATGGCAATCTTAATATTCACTGAGAACATGTTATGGTCCATTTGTTCTTCTGGACAGGAAATTTTGAATCCTCATAAATTTAACAACCATAAAATTTTTAAAATTCATACTCATTGCAACAATCTCTTTACAACATTAGCAATTTTGACATCACCATTAACCGAATTATATAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACTCATTGCAACAATCTCTTTACA
57.12
AACCCTTCAATGGCTGCAGA
59.89
154
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCATACTCATTGCAACAATCTCT
56
AACCCTTCAATGGCTGCAGA
59.89
158
PCR template sequence:
ATAAATTTAACAACCATAAAATTTTTAAAATTCATACTCATTGCAACAATCTCTTTACAACATTAGCAATTTTGACATCACCATTAACCGAATTATATAAGCTACTTTACTAGAGTTTGGCTGGAGAAATGCTTTTAAAGAAGTGCCTCTTGCCATAGCACACTGCATATCTGCAGCCATTGAAGGGTTTTCCACTCAAG
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-9-5p(1), mmu-miR-20b-5p(1), mmu-miR-106a-5p(1), mmu-miR-20a-5p(1), mmu-miR-17-5p(1), mmu-miR-106b-5p(1), mmu-miR-199b-3p(1), mmu-miR-199a-3p(1), mmu-miR-370-3p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CCGAATTATATAAGCTACTTTACTAG
siRNA sets
AGTAGCTTATATAATTCGG,AAGTAGCTTATATAATTCG,TAAAGTAGCTTATATAATT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRC2210408I21RIK_1019_ORF_1
0.8862
0.131693035
0.921252742
771
ORF sequence:
ATGCTTCTCCTGGCCCTGGCATGCCGAGATGATTCTCCTCAGGAAATCAAAGAGAACCTGGTAGAGGCCTACAGTAAAGTGGCAACAGCTGTCCTGGAAAGACTGCAGGAGAGAGGAAAGGAGGTTCCTTCCCGAGCACCACTGAAGAACCTGCACAGCATCCTGTCCTCAGCAACGTATGTCTCTCAGCGGTTCACTCACTATGATAATCTGATGAAAGAGACAACTAAGAAACCCATATTCCTGGTGCCTGTCCAGCGCTATCAGGAATTCATCAACACTGTCCAGTTTCAGGTTACGGACTACTGCGCCAGAGTTTGTGCTATGAGCATTTTACAGGATGCTGAGAGCCACCACTGGGATGACTACAAAGCTTTTTATGAGGGGGAAAGATGCTCCTTCGCCATCCAGATGTGGCATTACTTCAGCTTGGCTCTGCATCATGATCTCTGGACCATACTGCCCCCTAAGCTGGCCCAGGAGATTCTAGCAGAGATGCTGGAGAAATCCTTGGGTCTACTTGCCTCCAGATATGCTCGGGCCCACCCCAGTCCTAAGAGAACTGCACAGATAAGACTTGATGTCATGGCAATCTTAATATTCACTGAGAACATGTTATGGTCCATTTGTTCTTCTGGACAGGAAATTTTGAATCCTCATAAATTTAACAACCATAAAATTTTTAAAATTCATACTCATTGCAACAATCTCTTTACAACATTAGCAATTTTGACATCACCATTAACCGAATTATATAAGCTACTTTACTAG
Peptide sequence:
MLLLALACRDDSPQEIKENLVEAYSKVATAVLERLQERGKEVPSRAPLKNLHSILSSATYVSQRFTHYDNLMKETTKKPIFLVPVQRYQEFINTVQFQVTDYCARVCAMSILQDAESHHWDDYKAFYEGERCSFAIQMWHYFSLALHHDLWTILPPKLAQEILAEMLEKSLGLLASRYARAHPSPKRTAQIRLDVMAILIFTENMLWSICSSGQEILNPHKFNNHKIFKIHTHCNNLFTTLAILTSPLTELYKLLY
IRESfinder result
IRESfinder score
0.68125686
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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