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mmu_circ2610507B11Rik_683
Basic information of circular RNA
PanCircBase ID:
mmu_circ2610507B11Rik_683
mm39_Chr. Position ID:
chr11|78173884|78176622|+
Gene name:
2610507B11Rik
Transcript:
ENSMUST00000010421.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
27,28,29,30,31
Exon/intron offsets:
0,1041,1680,2379,2616
Genomic length:
2738
Exon/intron sizes in nt:
10,01,83,12,21,56,122
Flanking exon/introns:
chr11:78170741-78173884|chr11:78176622-78177338
Splice length:
683
Other database IDs:
circBase: hsa_circ_0042594
Human Ortholog IDs:
Mature spliced Sequence:
GTGAAGAATATTGAGGAGCACCGGGAACGTAGTCTGGACTCTGTTCAGGAGCTGATGGAAAGTGGGCAGGCAGTGGGAGGCATGGTTACCACAACCACAGACTGGAACCAGCCAGCGGAAGCCCAGCAAGCCCAGCAAGTCCAGAGGATCATTTCACGTTGTAATTGCCGGATGTACTATATTAGCTACAGCCATGACATTGATCCTGAGCTAGCAACTCAGATTAAGCCACCTGAGGTTCATGAGAACCAGGAAAAGGAGGATCTCTTAAAGAAGCAGGAAGGGGCTGTGGATACTTTTACTCTCATCCACCACGAATTGGAAATTTCTACCAACCCAGCTCAGTATGCTATGATTCTGGACATTGTCAACAACCTGCTTCTCCACGTAGAACCCAAGCGGAAGGAGCATAGTGAAAAGAAACAGCGCGTGAGGTTCCAGCTGGAGATCTCTAGCAATCCTGAGGAGCAGCGCAGCAGCATACTACACCTGCAGGAGGCTGTGCGGCAGCATGTGGCCCAGATAAGGCACCTAGAGAAGCAGATGTACTCTATCATGAAGTCTTTACAGGATGACAGCAAGAATGAGAACTTGCTGGACCTGAACCAAAAACTTCAGTTACAGCTGAACCAAGAAAAGGCCAACCTGCAGCTGGAAAGCGAAGAACTGAACATCCTCATCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACTTGCTGGACCTGAACCAA
59.45
TGCCCACTTTCCATCAGCTC
60.32
162
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AACTTGCTGGACCTGAACCA
59.45
TGCCCACTTTCCATCAGCTC
60.32
163
PCR template sequence:
ATGAGAACTTGCTGGACCTGAACCAAAAACTTCAGTTACAGCTGAACCAAGAAAAGGCCAACCTGCAGCTGGAAAGCGAAGAACTGAACATCCTCATCAGGTGAAGAATATTGAGGAGCACCGGGAACGTAGTCTGGACTCTGTTCAGGAGCTGATGGAAAGTGGGCAGGCAGTGGGAGGCATGGTTACCACAACCACAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-335-3p(3), mmu-miR-433-3p(1), mmu-miR-29b-1-5p(1), mmu-miR-182-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ACATCCTCATCAGGTGAAGAATATTG
siRNA sets
ATATTCTTCACCTGATGAG, AATATTCTTCACCTGATGA, CAATATTCTTCACCTGATG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRC2610507B11RIK_683_ORF_1
1.3048
0.398409441
0.966048972
633
ORF sequence:
ATGGAAAGTGGGCAGGCAGTGGGAGGCATGGTTACCACAACCACAGACTGGAACCAGCCAGCGGAAGCCCAGCAAGCCCAGCAAGTCCAGAGGATCATTTCACGTTGTAATTGCCGGATGTACTATATTAGCTACAGCCATGACATTGATCCTGAGCTAGCAACTCAGATTAAGCCACCTGAGGTTCATGAGAACCAGGAAAAGGAGGATCTCTTAAAGAAGCAGGAAGGGGCTGTGGATACTTTTACTCTCATCCACCACGAATTGGAAATTTCTACCAACCCAGCTCAGTATGCTATGATTCTGGACATTGTCAACAACCTGCTTCTCCACGTAGAACCCAAGCGGAAGGAGCATAGTGAAAAGAAACAGCGCGTGAGGTTCCAGCTGGAGATCTCTAGCAATCCTGAGGAGCAGCGCAGCAGCATACTACACCTGCAGGAGGCTGTGCGGCAGCATGTGGCCCAGATAAGGCACCTAGAGAAGCAGATGTACTCTATCATGAAGTCTTTACAGGATGACAGCAAGAATGAGAACTTGCTGGACCTGAACCAAAAACTTCAGTTACAGCTGAACCAAGAAAAGGCCAACCTGCAGCTGGAAAGCGAAGAACTGAACATCCTCATCAGGTGA
Peptide sequence:
MESGQAVGGMVTTTTDWNQPAEAQQAQQVQRIISRCNCRMYYISYSHDIDPELATQIKPPEVHENQEKEDLLKKQEGAVDTFTLIHHELEISTNPAQYAMILDIVNNLLLHVEPKRKEHSEKKQRVRFQLEISSNPEEQRSSILHLQEAVRQHVAQIRHLEKQMYSIMKSLQDDSKNENLLDLNQKLQLQLNQEKANLQLESEELNILIR
IRESfinder result
IRESfinder score
0.465923534
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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