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mmu_circActr3b_907
Basic information of circular RNA
PanCircBase ID:
mmu_circActr3b_907
mm39_Chr. Position ID:
chr5|26003443|26037476|+
Gene name:
Actr3b
Transcript:
ENSMUST00000088244.6
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
2,3,4,5,6,7,8,9
Exon/intron offsets:
0,11339,13471,23959,26662,31080,33165,33940
Genomic length:
34033
Exon/intron sizes in nt:
56,125,111,96,108,144,174,93
Flanking exon/introns:
chr5:25965126-26003443|chr5:26037476-26053359
Splice length:
907
Other database IDs:
circBase: mmu_circ_0012479, CIRCpedia: MMU_CIRCpedia_14642, circAtlas: mmu-Actr3b_0004
circBase: hsa_circ_0005181, circAtlas: hsa-ACTR3B_0002, CIRCpedia: HSA_CIRCpedia_57305
Human Ortholog IDs:
Mature spliced Sequence:
GTACACCAAGCTTGGCTACGCAGGCAACACTGAACCACAGTTCATTATCCCGTCATGTATCGCCATCCGAGAATCTGCAAAGGTAGTTGATCAAGCCCAAAGGAGGGTGTTGAGAGGAGTCGATGACCTTGATTTCTTCATAGGGGATGAAGCCATTGATAAACCTACCTACGCTACCAAGTGGCCTATACGACATGGCATCGTTGAAGACTGGGATCTTATGGAAAGGTTCATGGAACAAGTGGTCTTTAAGTATCTTCGTGCTGAACCTGAGGACCACTACTTTTTAATGACAGAACCTCCACTGAACACACCAGAAAACAGAGAGTACCTTGCAGAAATCATGTTTGAATCATTTAATGTACCAGGACTCTACATTGCAGTACAGGCAGTGCTGGCTCTGGCAGCCTCTTGGACATCCCGGCAAGTTGGTGAACGCACACTAACGGGGATAGTTATAGACAGTGGAGACGGTGTCACCCATGTTATCCCGGTGGCAGAAGGTTATGTAATTGGAAGCTGCATCAAACACATCCCAATTGCAGGTAGAGATATTACGTATTTCATTCAACAGCTGCTAAGGGAGAGGGAGGTGGGAATCCCTCCTGAGCAGTCACTGGAAACCGCAAAAGCCATCAAGGAGAAGTACTGCTACATTTGCCCGGATATTGTCAGAGAATTTGCTAAGTATGACGTAGATCCTCGGAAGTGGATCAAACAGTACACAGGGATCAATGCCATCAACCAGAAGAAGTTCATTATAGATGTTGGTTATGAAAGGTTCCTGGGACCAGAAATATTCTTTCACCCTGAGTTTGCCAACCCAGACTTTATGGAGTCCATCTCGGATGTTGTCGATGAAGTCATACAGAGCTGTCCCATAGATGTGCGCCGGCCGCTGTATAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCTGAGTTTGCCAACCCAGA
60.18
TCGGATGGCGATACATGACG
60.04
169
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCTGAGTTTGCCAACCCAGA
60.18
GATGGCGATACATGACGGGA
59.68
166
PCR template sequence:
CCCTGAGTTTGCCAACCCAGACTTTATGGAGTCCATCTCGGATGTTGTCGATGAAGTCATACAGAGCTGTCCCATAGATGTGCGCCGGCCGCTGTATAAGGTACACCAAGCTTGGCTACGCAGGCAACACTGAACCACAGTTCATTATCCCGTCATGTATCGCCATCCGAGAATCTGCAAAGGTAGTTGATCAAGCCCAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-135a-5p(2), mmu-miR-210-3p(1), mmu-miR-541-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-1198-5p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
GCCGCTGTATAAGGTACACCAAGCTT
siRNA sets
TTGGTGTACCTTATACAGC,CTTGGTGTACCTTATACAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCACTR3B_907_ORF_1
1.1059
0.252371164
0.989165202
930
ORF sequence:
ATGTGCGCCGGCCGCTGTATAAGGTACACCAAGCTTGGCTACGCAGGCAACACTGAACCACAGTTCATTATCCCGTCATGTATCGCCATCCGAGAATCTGCAAAGGTAGTTGATCAAGCCCAAAGGAGGGTGTTGAGAGGAGTCGATGACCTTGATTTCTTCATAGGGGATGAAGCCATTGATAAACCTACCTACGCTACCAAGTGGCCTATACGACATGGCATCGTTGAAGACTGGGATCTTATGGAAAGGTTCATGGAACAAGTGGTCTTTAAGTATCTTCGTGCTGAACCTGAGGACCACTACTTTTTAATGACAGAACCTCCACTGAACACACCAGAAAACAGAGAGTACCTTGCAGAAATCATGTTTGAATCATTTAATGTACCAGGACTCTACATTGCAGTACAGGCAGTGCTGGCTCTGGCAGCCTCTTGGACATCCCGGCAAGTTGGTGAACGCACACTAACGGGGATAGTTATAGACAGTGGAGACGGTGTCACCCATGTTATCCCGGTGGCAGAAGGTTATGTAATTGGAAGCTGCATCAAACACATCCCAATTGCAGGTAGAGATATTACGTATTTCATTCAACAGCTGCTAAGGGAGAGGGAGGTGGGAATCCCTCCTGAGCAGTCACTGGAAACCGCAAAAGCCATCAAGGAGAAGTACTGCTACATTTGCCCGGATATTGTCAGAGAATTTGCTAAGTATGACGTAGATCCTCGGAAGTGGATCAAACAGTACACAGGGATCAATGCCATCAACCAGAAGAAGTTCATTATAGATGTTGGTTATGAAAGGTTCCTGGGACCAGAAATATTCTTTCACCCTGAGTTTGCCAACCCAGACTTTATGGAGTCCATCTCGGATGTTGTCGATGAAGTCATACAGAGCTGTCCCATAGATGTGCGCCGGCCGCTGTATAAG
Peptide sequence:
MCAGRCIRYTKLGYAGNTEPQFIIPSCIAIRESAKVVDQAQRRVLRGVDDLDFFIGDEAIDKPTYATKWPIRHGIVEDWDLMERFMEQVVFKYLRAEPEDHYFLMTEPPLNTPENREYLAEIMFESFNVPGLYIAVQAVLALAASWTSRQVGERTLTGIVIDSGDGVTHVIPVAEGYVIGSCIKHIPIAGRDITYFIQQLLREREVGIPPEQSLETAKAIKEKYCYICPDIVREFAKYDVDPRKWIKQYTGINAINQKKFIIDVGYERFLGPEIFFHPEFANPDFMESISDVVDEVIQSCPIDVRRPLYK
IRESfinder result
IRESfinder score
0.469882032
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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