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mmu_circTcerg1_360
Basic information of circular RNA
PanCircBase ID:
mmu_circTcerg1_360
mm39_Chr. Position ID:
chr18|42686472|42697298|+
Gene name:
Tcerg1
Transcript:
ENSMUST00000237602.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
14,15,16
Exon/intron offsets:
0,7526,10675
Genomic length:
10826
Exon/intron sizes in nt:
9,01,19,151
Flanking exon/introns:
chr18:42685692-42686472|chr18:42697298-42700935
Splice length:
360
Other database IDs:
CIRCpedia: MMU_CIRCpedia_19881, circAtlas: mmu-Tcerg1_0011
circBase: hsa_circ_0128247, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_371278
Human Ortholog IDs:
Mature spliced Sequence:
GTGTCTGCTTTTTCAACATGGGAGAAAGAGTTGCACAAGATAGTATTTGACCCTCGGTACTTGCTTCTCAATCCTAAAGAAAGAAAACAGGTGTTTGATCAGTATGTCAAGACCAGAGCAGAGGAAGAACGCAGGGAAAAGAAAAACAAAATAATGCAAGCCAAGGAAGATTTCAAAAAAATGATGGAAGAAGCAAAGTTTAATCCAAGAGCTACTTTTAGTGAATTTGCTGCCAAACATGCTAAAGATTCAAGATTCAAAGCAATTGAAAAGATGAAAGATAGAGAAGCATTGTTTAATGAGTTTGTGGCAGCTGCAAGGAAGAAAGAAAAAGAAGATTCGAAGACGAGAGGGGAGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AATGAGTTTGTGGCAGCTGC
59.68
TTAGGATTGAGAAGCAAGTACCGA
59.54
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTAATGAGTTTGTGGCAGCTGC
60.03
AGGATTGAGAAGCAAGTACCGA
59.17
140
PCR template sequence:
AGCAATTGAAAAGATGAAAGATAGAGAAGCATTGTTTAATGAGTTTGTGGCAGCTGCAAGGAAGAAAGAAAAAGAAGATTCGAAGACGAGAGGGGAGAAGGTGTCTGCTTTTTCAACATGGGAGAAAGAGTTGCACAAGATAGTATTTGACCCTCGGTACTTGCTTCTCAATCCTAAAGAAAGAAAACAGGTGTTTGATC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
GAGAGGGGAGAAGGTGTCTGCTTTTT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTCERG1_360_ORF_1
0.9682
0.157183624
0.781575411
567
ORF sequence:
ATGCAAGCCAAGGAAGATTTCAAAAAAATGATGGAAGAAGCAAAGTTTAATCCAAGAGCTACTTTTAGTGAATTTGCTGCCAAACATGCTAAAGATTCAAGATTCAAAGCAATTGAAAAGATGAAAGATAGAGAAGCATTGTTTAATGAGTTTGTGGCAGCTGCAAGGAAGAAAGAAAAAGAAGATTCGAAGACGAGAGGGGAGAAGGTGTCTGCTTTTTCAACATGGGAGAAAGAGTTGCACAAGATAGTATTTGACCCTCGGTACTTGCTTCTCAATCCTAAAGAAAGAAAACAGGTGTTTGATCAGTATGTCAAGACCAGAGCAGAGGAAGAACGCAGGGAAAAGAAAAACAAAATAATGCAAGCCAAGGAAGATTTCAAAAAAATGATGGAAGAAGCAAAGTTTAATCCAAGAGCTACTTTTAGTGAATTTGCTGCCAAACATGCTAAAGATTCAAGATTCAAAGCAATTGAAAAGATGAAAGATAGAGAAGCATTGTTTAATGAGTTTGTGGCAGCTGCAAGGAAGAAAGAAAAAGAAGATTCGAAGACGAGAGGGGAGAAG
Peptide sequence:
MQAKEDFKKMMEEAKFNPRATFSEFAAKHAKDSRFKAIEKMKDREALFNEFVAAARKKEKEDSKTRGEKVSAFSTWEKELHKIVFDPRYLLLNPKERKQVFDQYVKTRAEEERREKKNKIMQAKEDFKKMMEEAKFNPRATFSEFAAKHAKDSRFKAIEKMKDREALFNEFVAAARKKEKEDSKTRGEK
IRESfinder result
IRESfinder score
0.518942601
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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