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mmu_circEhbp1_917
Basic information of circular RNA
PanCircBase ID:
mmu_circEhbp1_917
mm39_Chr. Position ID:
chr11|22119034|22235874|-
Gene name:
Ehbp1
Transcript:
ENSMUST00000109563.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
7,6,5,4,3,2
Exon/intron offsets:
0,3790,62967,70108,78935,116453
Genomic length:
116840
Exon/intron sizes in nt:
14,01,82,54,96,58,387
Flanking exon/introns:
chr11:22101892-22119034|chr11:22235874-22236681
Splice length:
917
Other database IDs:
circAtlas: mmu-Ehbp1_0079
CIRCpedia: HSA_CIRCpedia_41985
Human Ortholog IDs:
Mature spliced Sequence:
TTCTCCAGAACCCACGTCATATAGTCCCTGAAGTGGAATGATGATGTCTCCATGAGGGAACCTCCTCTCAGTCATCCTGTCCTGTACATCAGCTGTTCTTGACTGGGCCATTGATCTAAGATAGGATTTACCCTGTGAGACAGGGAGAAGACTTATGGACGCCAAGCATCATTTCAAGTTCTAGTTTTTGTTGAAAGTACTGACATACATGCAAGGCTCGTGTGCTTTATCAAAGCTGCTGTGTTGCTAATCCAGAACTGTTCCAGTCTCTTGGCCTATCACCATGGCTTCAGTTTGGAAGCGACTGCAGCGTGTGGGAAAACATGCATCCAAGTTCCAGTTTGTGGCCTCCTACCAGGAGCTGATGGTTGAATGTACAAAGAAATGGCAACCAGATAAACTGGTGGTTGTTTGGACAAGAAGAAGCCGAAGGAAGTCTTCCAAGGCTCACAGCTGGCAACCTGGAATAAAAAATCCATATCGTGGTGTTGTTGTTTGGCCTGTTCCTGAAAACATTGAAATCACTGTGACGCTGTTTAAGGATCCTCATGCAGAAGAATTTGAAGACAAAGAATGGACATTTGTCATTGAGAATGAATCCCCTTCTGGTCGGAGGAAAGCTCTTGCCACCAGCAGCATTAACATGAAACAGTACGCAAGCCCCATGCCAACACAAACTGACGTCAAGTTAAAATTCAAGCCGCTGTCTAAGAAGGTCGTGTCTGCCACTCTCCAGTTCTCACTGTCCTGTATCTTCCTTCGGGAGGGAAAAGCAACGGATGAAGATATGCAGAGTTTGGCTAGTTTGATGAGTATGAAGCAGGCAGACATTGGCAATTTAGATGATTTCGAAGAAGATAATGAGGATGATGACGAGAACCGTGTGAACCAAGAGGAGAAGGCGGCAAAAATTACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGAGAACCGTGTGAACCAAG
59.14
ACAGCTGATGTACAGGACAGG
59.45
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGAGAACCGTGTGAACCAAG
59.14
AACAGCTGATGTACAGGACAGG
60.03
141
PCR template sequence:
AAGCAGGCAGACATTGGCAATTTAGATGATTTCGAAGAAGATAATGAGGATGATGACGAGAACCGTGTGAACCAAGAGGAGAAGGCGGCAAAAATTACAGTTCTCCAGAACCCACGTCATATAGTCCCTGAAGTGGAATGATGATGTCTCCATGAGGGAACCTCCTCTCAGTCATCCTGTCCTGTACATCAGCTGTTCTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
14
Interacting miRNAs (#binding sites)
mmu-miR-155-5p(1), mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-7b-5p(1), mmu-miR-181a-5p(1), mmu-miR-223-3p(1), mmu-miR-7a-5p(1), mmu-miR-339-5p(1), mmu-miR-181b-5p(1), mmu-miR-297a-5p(1), mmu-miR-129-5p(1), mmu-miR-207(1), mmu-miR-188-3p(1), mmu-miR-3065-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GCAAAAATTACAGTTCTCCAGAACCC
siRNA sets
GGAGAACTGTAATTTTTGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCEHBP1_917_ORF_1
1.1123
0.220274399
0.927851224
675
ORF sequence:
ATGGCTTCAGTTTGGAAGCGACTGCAGCGTGTGGGAAAACATGCATCCAAGTTCCAGTTTGTGGCCTCCTACCAGGAGCTGATGGTTGAATGTACAAAGAAATGGCAACCAGATAAACTGGTGGTTGTTTGGACAAGAAGAAGCCGAAGGAAGTCTTCCAAGGCTCACAGCTGGCAACCTGGAATAAAAAATCCATATCGTGGTGTTGTTGTTTGGCCTGTTCCTGAAAACATTGAAATCACTGTGACGCTGTTTAAGGATCCTCATGCAGAAGAATTTGAAGACAAAGAATGGACATTTGTCATTGAGAATGAATCCCCTTCTGGTCGGAGGAAAGCTCTTGCCACCAGCAGCATTAACATGAAACAGTACGCAAGCCCCATGCCAACACAAACTGACGTCAAGTTAAAATTCAAGCCGCTGTCTAAGAAGGTCGTGTCTGCCACTCTCCAGTTCTCACTGTCCTGTATCTTCCTTCGGGAGGGAAAAGCAACGGATGAAGATATGCAGAGTTTGGCTAGTTTGATGAGTATGAAGCAGGCAGACATTGGCAATTTAGATGATTTCGAAGAAGATAATGAGGATGATGACGAGAACCGTGTGAACCAAGAGGAGAAGGCGGCAAAAATTACAGTTCTCCAGAACCCACGTCATATAGTCCCTGAAGTGGAATGA
Peptide sequence:
MASVWKRLQRVGKHASKFQFVASYQELMVECTKKWQPDKLVVVWTRRSRRKSSKAHSWQPGIKNPYRGVVVWPVPENIEITVTLFKDPHAEEFEDKEWTFVIENESPSGRRKALATSSINMKQYASPMPTQTDVKLKFKPLSKKVVSATLQFSLSCIFLREGKATDEDMQSLASLMSMKQADIGNLDDFEEDNEDDDENRVNQEEKAAKITVLQNPRHIVPEVE
IRESfinder result
IRESfinder score
0.525523499
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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