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mmu_circ4932438A13Rik_446
Basic information of circular RNA
PanCircBase ID:
mmu_circ4932438A13Rik_446
mm39_Chr. Position ID:
chr3|36949407|36962398|+
Gene name:
4932438A13Rik
Transcript:
ENSMUST00000057272.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
12,13,14,15
Exon/intron offsets:
0,547,11432,12873
Genomic length:
12991
Exon/intron sizes in nt:
157,79,92,118
Flanking exon/introns:
chr3:36945094-36949407|chr3:36962398-36971766
Splice length:
446
Other database IDs:
circBase: mmu_circ_0010658, CIRCpedia: MMU_CIRCpedia_18282, circAtlas: mmu-4932438A13Rik_0008
circAtlas: hsa-KIAA1109_0015, CIRCpedia: HSA_CIRCpedia_124125
Human Ortholog IDs:
Mature spliced Sequence:
AGATTGTTTATGGAAGTTTTTCTTTCCACCTGATTATCAAGTTCTGAAAGTCTCTGAGATTGCACAGCCTGGAAGACCAAGACAAATCCTTGCATTTGAACTCCGAATGAATATTATTACAGATGCTACCATTGACTTGCTGTTTACCAAAAACAGGGAAACAAATGCTGTGCATGTAAATGTAGGGGCTGGCTCATATTTAGAAATTAATATTCCGATGACAGTTGACGAAAATGGTTATACCCCTGCTATTAAAGGACAACTATTACATGTTGATGCTACTACCAGTATGCAATATCGGACCCTTTTAGAAGCAGAGATGTTAGCATTCCACATCAATGCCAGCTACCCCAGAATTTGGAACATGCCACAGACATGGCAATGTGAATTGGAAGTATATAAAGCCACATACCACTTCATCTTTGCACAGAAGAACTTCTTTACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTTGGAACATGCCACAGACA
57.94
CCAGGCTGTGCAATCTCAGA
60.04
162
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTTGGAACATGCCACAGACA
57.94
TCCAGGCTGTGCAATCTCAG
60.04
163
PCR template sequence:
TACCCCAGAATTTGGAACATGCCACAGACATGGCAATGTGAATTGGAAGTATATAAAGCCACATACCACTTCATCTTTGCACAGAAGAACTTCTTTACAGAGATTGTTTATGGAAGTTTTTCTTTCCACCTGATTATCAAGTTCTGAAAGTCTCTGAGATTGCACAGCCTGGAAGACCAAGACAAATCCTTGCATTTGAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-23b-3p(1), mmu-miR-23a-3p(1), mmu-miR-130b-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AACTTCTTTACAGAGATTGTTTATGG
siRNA sets
TAAACAATCTCTGTAAAGA, ATAAACAATCTCTGTAAAG, AAACAATCTCTGTAAAGAA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRC4932438A13RIK_446_ORF_1
0.9329
-0.011345815
0.313723135
387
ORF sequence:
ATGAATATTATTACAGATGCTACCATTGACTTGCTGTTTACCAAAAACAGGGAAACAAATGCTGTGCATGTAAATGTAGGGGCTGGCTCATATTTAGAAATTAATATTCCGATGACAGTTGACGAAAATGGTTATACCCCTGCTATTAAAGGACAACTATTACATGTTGATGCTACTACCAGTATGCAATATCGGACCCTTTTAGAAGCAGAGATGTTAGCATTCCACATCAATGCCAGCTACCCCAGAATTTGGAACATGCCACAGACATGGCAATGTGAATTGGAAGTATATAAAGCCACATACCACTTCATCTTTGCACAGAAGAACTTCTTTACAGAGATTGTTTATGGAAGTTTTTCTTTCCACCTGATTATCAAGTTCTGA
Peptide sequence:
MNIITDATIDLLFTKNRETNAVHVNVGAGSYLEINIPMTVDENGYTPAIKGQLLHVDATTSMQYRTLLEAEMLAFHINASYPRIWNMPQTWQCELEVYKATYHFIFAQKNFFTEIVYGSFSFHLIIKF
IRESfinder result
IRESfinder score
0.701220562
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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