top of page
mmu_circInts8_410
Basic information of circular RNA
PanCircBase ID:
mmu_circInts8_410
mm39_Chr. Position ID:
chr4|11209391|11218673|-
Gene name:
Ints8
Transcript:
ENSMUST00000044616.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
24,23,22,21,20
Exon/intron offsets:
0,2490,4314,7065,9220
Genomic length:
9282
Exon/intron sizes in nt:
74,51,104,119,62
Flanking exon/introns:
chr4:11209276-11209391|chr4:11218673-11218768
Splice length:
410
Other database IDs:
circBase: hsa_circ_0137400, circAtlas: hsa-INTS8_0054, CIRCpedia: HSA_CIRCpedia_61883
Human Ortholog IDs:
Mature spliced Sequence:
GAGGACATTGTGAATGATATCACAGCCGAGCACATTTCTATCTGGCCATCTTCCATACCTAACCTCCAATCCGTGGATTTTGAAGCTGTAGCAATCACTGTGAAAGAGCTAGTTCGATATACACTCAGTATAAATCCAAACAACCATGCTTGGCTAATTATTCAAGCGGATATTTATTTTGCAACAAATCAGCATTCGGCAGCTCTTCACTATTACCTCCAGGCAGGAGCTGTGTGCTCTGACTTCTTTAATAAGGCTGTGCCTCCTGATGTATATACAGACCAAGTGATAAAACGAATGATAAAATGCTGTTCTTTGCTGAATTGTCATACACAGGTGGCAATTTTATGTCAGTTCCTCAGAGAAATTGACTACAAAACAGCCTTCAAGTCATTGCAGGAACAAAACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTGTCATACACAGGTGGCAA
57.35
GCTACAGCTTCAAAATCCACGG
60.16
179
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTGTCATACACAGGTGGCAA
57.35
AGGTATGGAAGATGGCCAGA
57.8
147
PCR template sequence:
GTTCTTTGCTGAATTGTCATACACAGGTGGCAATTTTATGTCAGTTCCTCAGAGAAATTGACTACAAAACAGCCTTCAAGTCATTGCAGGAACAAAACAGGAGGACATTGTGAATGATATCACAGCCGAGCACATTTCTATCTGGCCATCTTCCATACCTAACCTCCAATCCGTGGATTTTGAAGCTGTAGCAATCACTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-5101(1), mmu-miR-544-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGGAACAAAACAGGAGGACATTGTGA
siRNA sets
TGTCCTCCTGTTTTGTTCC, GTCCTCCTGTTTTGTTCCT, AATGTCCTCCTGTTTTGTT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCINTS8_410_ORF_1
0.7568
-0.231754692
0.019973109
126
ORF sequence:
ATGATAAAATGCTGTTCTTTGCTGAATTGTCATACACAGGTGGCAATTTTATGTCAGTTCCTCAGAGAAATTGACTACAAAACAGCCTTCAAGTCATTGCAGGAACAAAACAGGAGGACATTGTGA
Peptide sequence:
MIKCCSLLNCHTQVAILCQFLREIDYKTAFKSLQEQNRRTL
IRESfinder result
IRESfinder score
0.765664079
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page