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mmu_circEhbp1_595
Basic information of circular RNA
PanCircBase ID:
mmu_circEhbp1_595
mm39_Chr. Position ID:
chr11|22182001|22235874|-
Gene name:
Ehbp1
Transcript:
ENSMUST00000109563.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
5,4,3,2
Exon/intron offsets:
0,7141,15968,53486
Genomic length:
53873
Exon/intron sizes in nt:
54,96,58,387
Flanking exon/introns:
chr11:22123006-22182001|chr11:22235874-22236681
Splice length:
595
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
TTCTCCAGAACCCACGTCATATAGTCCCTGAAGTGGAATGATGATGTCTCCATGAGGGAACCTCCTCTCAGTCATCCTGTCCTGTACATCAGCTGTTCTTGACTGGGCCATTGATCTAAGATAGGATTTACCCTGTGAGACAGGGAGAAGACTTATGGACGCCAAGCATCATTTCAAGTTCTAGTTTTTGTTGAAAGTACTGACATACATGCAAGGCTCGTGTGCTTTATCAAAGCTGCTGTGTTGCTAATCCAGAACTGTTCCAGTCTCTTGGCCTATCACCATGGCTTCAGTTTGGAAGCGACTGCAGCGTGTGGGAAAACATGCATCCAAGTTCCAGTTTGTGGCCTCCTACCAGGAGCTGATGGTTGAATGTACAAAGAAATGGCAACCAGATAAACTGGTGGTTGTTTGGACAAGAAGAAGCCGAAGGAAGTCTTCCAAGGCTCACAGCTGGCAACCTGGAATAAAAAATCCATATCGTGGTGTTGTTGTTTGGCCTGTTCCTGAAAACATTGAAATCACTGTGACGCTGTTTAAGGATCCTCATGCAGAAGAATTTGAAGACAAAGAATGGACATTTGTCATTGAGAAT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCACTGTGACGCTGTTTAAGGA
59.9
TGACTGAGAGGAGGTTCCCT
59.21
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTGGCCTGTTCCTGAAAACA
57.85
TGACTGAGAGGAGGTTCCCT
59.21
174
PCR template sequence:
TTGGCCTGTTCCTGAAAACATTGAAATCACTGTGACGCTGTTTAAGGATCCTCATGCAGAAGAATTTGAAGACAAAGAATGGACATTTGTCATTGAGAATTTCTCCAGAACCCACGTCATATAGTCCCTGAAGTGGAATGATGATGTCTCCATGAGGGAACCTCCTCTCAGTCATCCTGTCCTGTACATCAGCTGTTCTT
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-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-7b-5p(1), mmu-miR-181a-5p(1), mmu-miR-7a-5p(1), mmu-miR-339-5p(1), mmu-miR-181b-5p(1), mmu-miR-297a-5p(1), mmu-miR-207(1), mmu-miR-188-3p(1), mmu-miR-3065-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TGTCATTGAGAATTTCTCCAGAACCC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCEHBP1_595_ORF_1
0.7292
0.089740712
0.245399632
336
ORF sequence:
ATGGCTTCAGTTTGGAAGCGACTGCAGCGTGTGGGAAAACATGCATCCAAGTTCCAGTTTGTGGCCTCCTACCAGGAGCTGATGGTTGAATGTACAAAGAAATGGCAACCAGATAAACTGGTGGTTGTTTGGACAAGAAGAAGCCGAAGGAAGTCTTCCAAGGCTCACAGCTGGCAACCTGGAATAAAAAATCCATATCGTGGTGTTGTTGTTTGGCCTGTTCCTGAAAACATTGAAATCACTGTGACGCTGTTTAAGGATCCTCATGCAGAAGAATTTGAAGACAAAGAATGGACATTTGTCATTGAGAATTTCTCCAGAACCCACGTCATATAG
Peptide sequence:
MASVWKRLQRVGKHASKFQFVASYQELMVECTKKWQPDKLVVVWTRRSRRKSSKAHSWQPGIKNPYRGVVVWPVPENIEITVTLFKDPHAEEFEDKEWTFVIENFSRTHVI
IRESfinder result
IRESfinder score
0.632744098
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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