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mmu_circKdelr2_412
Basic information of circular RNA
PanCircBase ID:
mmu_circKdelr2_412
mm39_Chr. Position ID:
chr5|143403804|143405447|+
Gene name:
Kdelr2
Transcript:
ENSMUST00000110731.4
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
3,4
Exon/intron offsets:
0,1390
Genomic length:
1643
Exon/intron sizes in nt:
1,59,253
Flanking exon/introns:
chr5:143398346-143403804|chr5:143405447-143406555
Splice length:
412
Other database IDs:
circBase: hsa_circ_0003948, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_58486
Human Ortholog IDs:
Mature spliced Sequence:
CTTATCTACATTGCCTGCTCCTATGCCACGGTGTACCTGATCTACATGAAATTTAAGGCCACCTATGATGGAAATCACGATACCTTCCGAGTGGAGTTCCTGGTGGTTCCTGTAGGAGGCCTCTCATTTCTAGTCAATCATGACTTCTCTCCTCTTGAGATCTTATGGACCTTCTCCATCTACCTGGAGTCCGTGGCCATCCTTCCACAGCTCTTTATGATCAGCAAGACTGGCGAGGCTGAGACCATCACCACCCACTACCTCTTCTTCCTGGGCCTCTACCGCGCTCTGTACCTGGTCAACTGGATCTGGCGCTTCTACTTCGAGGGCTTCTTTGATCTCATTGCTGTGGTGGCTGGTGTCGTCCAGACCATTCTCTACTGCGACTTCTTCTACTTGTACATTACAAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGCTTCTACTTCGAGGGCTT
59.83
GATCAGGTACACCGTGGCAT
59.82
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGCTTCTACTTCGAGGGCTT
59.83
TCAGGTACACCGTGGCATAG
59.18
140
PCR template sequence:
CGCTTCTACTTCGAGGGCTTCTTTGATCTCATTGCTGTGGTGGCTGGTGTCGTCCAGACCATTCTCTACTGCGACTTCTTCTACTTGTACATTACAAAAGCTTATCTACATTGCCTGCTCCTATGCCACGGTGTACCTGATCTACATGAAATTTAAGGCCACCTATGATGGAAATCACGATACCTTCCGAGTGGAGTTCC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-let-7a-5p(1), mmu-let-7e-5p(1), mmu-let-7b-5p(1), mmu-let-7c-5p(1), mmu-let-7d-5p(1), mmu-miR-433-3p(1), mmu-miR-431-5p(1), mmu-miR-98-5p(1), mmu-miR-29b-2-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TACATTACAAAAGCTTATCTACATTG
siRNA sets
CAATGTAGATAAGCTTTTG, AATGTAGATAAGCTTTTGT, TAGATAAGCTTTTGTAATG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCKDELR2_412_ORF_1
1.2111
0.314578968
0.790597522
423
ORF sequence:
ATGAAATTTAAGGCCACCTATGATGGAAATCACGATACCTTCCGAGTGGAGTTCCTGGTGGTTCCTGTAGGAGGCCTCTCATTTCTAGTCAATCATGACTTCTCTCCTCTTGAGATCTTATGGACCTTCTCCATCTACCTGGAGTCCGTGGCCATCCTTCCACAGCTCTTTATGATCAGCAAGACTGGCGAGGCTGAGACCATCACCACCCACTACCTCTTCTTCCTGGGCCTCTACCGCGCTCTGTACCTGGTCAACTGGATCTGGCGCTTCTACTTCGAGGGCTTCTTTGATCTCATTGCTGTGGTGGCTGGTGTCGTCCAGACCATTCTCTACTGCGACTTCTTCTACTTGTACATTACAAAAGCTTATCTACATTGCCTGCTCCTATGCCACGGTGTACCTGATCTACATGAAATTTAA
Peptide sequence:
MKFKATYDGNHDTFRVEFLVVPVGGLSFLVNHDFSPLEILWTFSIYLESVAILPQLFMISKTGEAETITTHYLFFLGLYRALYLVNWIWRFYFEGFFDLIAVVAGVVQTILYCDFFYLYITKAYLHCLLLCHGVPDLHEI
IRESfinder result
IRESfinder score
0.729490002
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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