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mmu_circInts13_530
Basic information of circular RNA
PanCircBase ID:
mmu_circInts13_530
mm39_Chr. Position ID:
chr6|146456425|146459120|-
Gene name:
Ints13
Transcript:
ENSMUST00000032427.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
12,11,10,9
Exon/intron offsets:
0,1203,2323,2605
Genomic length:
2695
Exon/intron sizes in nt:
171,179,90,90
Flanking exon/introns:
chr6:146456144-146456425|chr6:146459120-146461623
Splice length:
530
Other database IDs:
CIRCpedia: MMU_CIRCpedia_216509, circAtlas: mmu-Asun_0008
Human Ortholog IDs:
Mature spliced Sequence:
GTGACAGCCACTCTGGGAGCAGCAGCAGAGAAGGGCCATTTAAGGAGACAGTAACCCTGAAGTGGTGCACACCCAGGACCAACAGCATTGAATTGCACTATTGCACTGGAGCTTACCGGATTTCACCTGTGGATGTAAATAGTAGACCTTCTTCCTGCCTTACTAATTTCCTCCTCAATGGTCGGTCTGTGTTGCTGGAGCAGCCACGAAAGTCAGGCTCCAAAGTCATCAGTCACATGCTTAGCAGCCATGGAGGAGAGATCTTTCTGCATGTCCTTAGCAGTTCTCGATCCATTCTGGAAGATCCGCCTTCAATTAGTGAGGGCTGTGGAGGAAGAGTTACAGACTACCGGATTACAGATTTTGGTGAATTTATGAGGGAAAACAGGTTAACTCCTTTTCTAGACCCCAGATATAAAATCGATGCAAGTCTAGAGATCCCGTTGGAGCGTGCAAAGGATCAGTTAGAAAAGCACACCCGTTACTGGCCCATGATTATTTCACAAACCACCATTTTCAACATGCAAGCG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCCGTTACTGGCCCATGATT
60.11
TCAATGCTGTTGGTCCTGGG
60.25
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTTGGAGCGTGCAAAGGATC
59.83
TCAATGCTGTTGGTCCTGGG
60.25
179
PCR template sequence:
TCTAGAGATCCCGTTGGAGCGTGCAAAGGATCAGTTAGAAAAGCACACCCGTTACTGGCCCATGATTATTTCACAAACCACCATTTTCAACATGCAAGCGGTGACAGCCACTCTGGGAGCAGCAGCAGAGAAGGGCCATTTAAGGAGACAGTAACCCTGAAGTGGTGCACACCCAGGACCAACAGCATTGAATTGCACTA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-134-5p(1), mmu-miR-146a-5p(1), mmu-miR-130a-3p(1), mmu-miR-148a-3p(1), mmu-miR-328-3p(1), mmu-miR-130b-3p(1), mmu-miR-301b-3p(1), mmu-miR-721(1), mmu-miR-218-5p(1), mmu-miR-301a-3p(1), mmu-miR-802-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CAACATGCAAGCGGTGACAGCCACTC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCINTS13_530_ORF_1
0.6819
0.090492057
0.246278414
348
ORF sequence:
ATGCTTAGCAGCCATGGAGGAGAGATCTTTCTGCATGTCCTTAGCAGTTCTCGATCCATTCTGGAAGATCCGCCTTCAATTAGTGAGGGCTGTGGAGGAAGAGTTACAGACTACCGGATTACAGATTTTGGTGAATTTATGAGGGAAAACAGGTTAACTCCTTTTCTAGACCCCAGATATAAAATCGATGCAAGTCTAGAGATCCCGTTGGAGCGTGCAAAGGATCAGTTAGAAAAGCACACCCGTTACTGGCCCATGATTATTTCACAAACCACCATTTTCAACATGCAAGCGGTGACAGCCACTCTGGGAGCAGCAGCAGAGAAGGGCCATTTAAGGAGACAGTAA
Peptide sequence:
MLSSHGGEIFLHVLSSSRSILEDPPSISEGCGGRVTDYRITDFGEFMRENRLTPFLDPRYKIDASLEIPLERAKDQLEKHTRYWPMIISQTTIFNMQAVTATLGAAAEKGHLRRQ
IRESfinder result
IRESfinder score
0.68509314
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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