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mmu_circAscc3_644
Basic information of circular RNA
PanCircBase ID:
mmu_circAscc3_644
mm39_Chr. Position ID:
chr10|50594387|50604406|+
Gene name:
Ascc3
Transcript:
ENSMUST00000035606.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
22,23,24,25
Exon/intron offsets:
0,2320,3481,9798
Genomic length:
10019
Exon/intron sizes in nt:
15,59,91,69,221
Flanking exon/introns:
chr10:50592806-50594387|chr10:50604406-50606007
Splice length:
644
Other database IDs:
circBase: hsa_circ_0077470, circAtlas: hsa-ASCC3_0149
Human Ortholog IDs:
Mature spliced Sequence:
GTCACATTTTGCATCATGTGAATATTGGACTGAAGGTCAAACAGTGTGTTCATCAAATTCCTTCTGTTACAATGGAAGCTTCCATTCAGCCCATCACACGGACTGTCCTCCGAGTATCACTGAACATCCACCCTGATTTCTCTTGGAATGACCAGGTTCATGGAACAGTGGGGGAACCATGGTGGATTTGGGTAGAAGATCCTACAAATGACCATATTTATCACTCGGAGTACTTTCTAGCTCTTAAAAAACAGGTTATTAATAAGGAAGCTCAACTTCTGGTATTTACAATTCCTATTTTTGAGCCTTTGCCCTCTCAGTACTACATTCGAGCAGTGTCTGATCGATGGCTAGGAGCTGAAGCTGTTTGCATTATCAACTTTCAACATCTGATTCTACCAGAGAGACATCCTCCCCATACAGAATTATTGGACCTTCAACCTTTACCAATTACAGCTTTGGGGTGCAAAGCATATGAAGCTCTATATAACTTCAGCCACTTTAACCCTGTACAGACGCAGATATTCCACACACTGTATCACACAGACTGTAATGTTCTGCTTGGCGCCCCCACCGGATCAGGAAAGACAGTTGCAGCTGAACTAGCCATTTTCAGAGTTTTCAACAAATATCCTACTTCAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCCACCGGATCAGGAAAGAC
60.11
CGTGTGATGGGCTGAATGGA
60.39
175
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCCACCGGATCAGGAAAGAC
60.11
TGATGGGCTGAATGGAAGCT
59.37
171
PCR template sequence:
AGACTGTAATGTTCTGCTTGGCGCCCCCACCGGATCAGGAAAGACAGTTGCAGCTGAACTAGCCATTTTCAGAGTTTTCAACAAATATCCTACTTCAAAGGTCACATTTTGCATCATGTGAATATTGGACTGAAGGTCAAACAGTGTGTTCATCAAATTCCTTCTGTTACAATGGAAGCTTCCATTCAGCCCATCACACG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-320-3p(1), mmu-miR-539-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TCCTACTTCAAAGGTCACATTTTGCA
siRNA sets
AAAATGTGACCTTTGAAGT,ATGTGACCTTTGAAGTAGG,AATGTGACCTTTGAAGTAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCASCC3_644_ORF_1
0.8669
-0.021343943
0.631379143
594
ORF sequence:
ATGGAAGCTTCCATTCAGCCCATCACACGGACTGTCCTCCGAGTATCACTGAACATCCACCCTGATTTCTCTTGGAATGACCAGGTTCATGGAACAGTGGGGGAACCATGGTGGATTTGGGTAGAAGATCCTACAAATGACCATATTTATCACTCGGAGTACTTTCTAGCTCTTAAAAAACAGGTTATTAATAAGGAAGCTCAACTTCTGGTATTTACAATTCCTATTTTTGAGCCTTTGCCCTCTCAGTACTACATTCGAGCAGTGTCTGATCGATGGCTAGGAGCTGAAGCTGTTTGCATTATCAACTTTCAACATCTGATTCTACCAGAGAGACATCCTCCCCATACAGAATTATTGGACCTTCAACCTTTACCAATTACAGCTTTGGGGTGCAAAGCATATGAAGCTCTATATAACTTCAGCCACTTTAACCCTGTACAGACGCAGATATTCCACACACTGTATCACACAGACTGTAATGTTCTGCTTGGCGCCCCCACCGGATCAGGAAAGACAGTTGCAGCTGAACTAGCCATTTTCAGAGTTTTCAACAAATATCCTACTTCAAAGGTCACATTTTGCATCATGTGA
Peptide sequence:
MEASIQPITRTVLRVSLNIHPDFSWNDQVHGTVGEPWWIWVEDPTNDHIYHSEYFLALKKQVINKEAQLLVFTIPIFEPLPSQYYIRAVSDRWLGAEAVCIINFQHLILPERHPPHTELLDLQPLPITALGCKAYEALYNFSHFNPVQTQIFHTLYHTDCNVLLGAPTGSGKTVAAELAIFRVFNKYPTSKVTFCIM
IRESfinder result
IRESfinder score
0.814237779
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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