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mmu_circRtn4ip1_321
Basic information of circular RNA
PanCircBase ID:
mmu_circRtn4ip1_321
mm39_Chr. Position ID:
chr10|43804318|43808542|+
Gene name:
Rtn4ip1
Transcript:
ENSMUST00000054418.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
6,7
Exon/intron offsets:
0,4040
Genomic length:
4224
Exon/intron sizes in nt:
137,184
Flanking exon/introns:
chr10:43797431-43804318|chr10:43808542-43811994
Splice length:
321
Other database IDs:
circAtlas: hsa-RTN4IP1_0006
Human Ortholog IDs:
Mature spliced Sequence:
GTAATGAAAGCATGGGGGGCTCATGTGACAGCCGTTTGCTCGAAAGATGCCAGTGAACTTGTGCGGAAGCTTGGAGCAGATGAGGTCATTGATTACACGTTGGGAAGTGTGGAAGAGCAATTGAAATCTCTAAAACTGTTTGACTTTATCCTTGATAACGTTGGTGGATCTACTGAAACATGGGCTCTAAATTTTCTCAAGAAGTGGTCAGGAGCTACCTATGTGACTCTGGTGACTCCTTTCCTCCTGAACATGGACCGACTGGGTGTTGCTGATGGCATGTTGCAGACAGGAGTCACCGTGGGTACAAAGGCATTGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCTCCTGAACATGGACCGAC
60.11
CCAAGCTTCCGCACAAGTTC
60.04
153
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCTCCTGAACATGGACCGAC
60.11
GCTTCCGCACAAGTTCACTG
60.04
149
PCR template sequence:
TGTGACTCTGGTGACTCCTTTCCTCCTGAACATGGACCGACTGGGTGTTGCTGATGGCATGTTGCAGACAGGAGTCACCGTGGGTACAAAGGCATTGAAGGTAATGAAAGCATGGGGGGCTCATGTGACAGCCGTTTGCTCGAAAGATGCCAGTGAACTTGTGCGGAAGCTTGGAGCAGATGAGGTCATTGATTACACGT
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-433-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AAAGGCATTGAAGGTAATGAAAGCAT
siRNA sets
TTTCATTACCTTCAATGCC, TTCATTACCTTCAATGCCT, ATGCTTTCATTACCTTCAA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRTN4IP1_321_ORF_1
1.0159
0.197362366
0.885871766
639
ORF sequence:
ATGAAAGCATGGGGGGCTCATGTGACAGCCGTTTGCTCGAAAGATGCCAGTGAACTTGTGCGGAAGCTTGGAGCAGATGAGGTCATTGATTACACGTTGGGAAGTGTGGAAGAGCAATTGAAATCTCTAAAACTGTTTGACTTTATCCTTGATAACGTTGGTGGATCTACTGAAACATGGGCTCTAAATTTTCTCAAGAAGTGGTCAGGAGCTACCTATGTGACTCTGGTGACTCCTTTCCTCCTGAACATGGACCGACTGGGTGTTGCTGATGGCATGTTGCAGACAGGAGTCACCGTGGGTACAAAGGCATTGAAGGTAATGAAAGCATGGGGGGCTCATGTGACAGCCGTTTGCTCGAAAGATGCCAGTGAACTTGTGCGGAAGCTTGGAGCAGATGAGGTCATTGATTACACGTTGGGAAGTGTGGAAGAGCAATTGAAATCTCTAAAACTGTTTGACTTTATCCTTGATAACGTTGGTGGATCTACTGAAACATGGGCTCTAAATTTTCTCAAGAAGTGGTCAGGAGCTACCTATGTGACTCTGGTGACTCCTTTCCTCCTGAACATGGACCGACTGGGTGTTGCTGATGGCATGTTGCAGACAGGAGTCACCGTGGGTACAAAGGCATTGAAG
Peptide sequence:
MKAWGAHVTAVCSKDASELVRKLGADEVIDYTLGSVEEQLKSLKLFDFILDNVGGSTETWALNFLKKWSGATYVTLVTPFLLNMDRLGVADGMLQTGVTVGTKALKVMKAWGAHVTAVCSKDASELVRKLGADEVIDYTLGSVEEQLKSLKLFDFILDNVGGSTETWALNFLKKWSGATYVTLVTPFLLNMDRLGVADGMLQTGVTVGTKALK
IRESfinder result
IRESfinder score
0.507676544
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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