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mmu_circEhbp1_660
Basic information of circular RNA
PanCircBase ID:
mmu_circEhbp1_660
mm39_Chr. Position ID:
chr11|21963483|22009261|-
Gene name:
Ehbp1
Transcript:
ENSMUST00000045167.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
22,21,20,19,18,17
Exon/intron offsets:
0,1371,39948,43046,43299,45653
Genomic length:
45778
Exon/intron sizes in nt:
7,41,00,12,49,81,39,120
Flanking exon/introns:
chr11:21957197-21963483|chr11:22009261-22012779
Splice length:
660
Other database IDs:
CIRCpedia: MMU_CIRCpedia_222824, circAtlas: mmu-Ehbp1_0024
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
AGCAGAATAGTAAGGTGGTGGACTTGAGGCTGAAGAAGCTATTAGAAGCCCAGCCACAGGTGGCAAACTTACTCCCCAGTGCTGCGCAGAAAGCTGTAACCGAGGCCTCCGAGCAAGGAGAAAAGAGTGGCGTGGAAGATCTCCGGACTGAACGATTACAAAAAGCAACAGAACGTTTCAGAAATCCTGTTGTGTTTAACAAGGATTCCACAGTCAGAAAGACTCAGCTCCAGTCTTTCAGTCAGTATGTTGAGAACAGACCAGAGATGAAAAGACAGAGATCAATACAGGAAGATACAAAGAGAGGAACTGAGGAGAAGGCAGAGATAACTGAAACTCAGAGGAAGCCATCAGAAGATGAAAAAGGGTTCAAAGACACCAGTCAGTATGTTGTAGGGGAATTGGCAGCACTGGAGAATGAGCAGAAGCAAATTGACACCCGTGCCGCGCTGGTGGAGAAGCGCCTCCGCTATCTCATGGACACAGGAAGGAACACGGAAGAAGAGGAGGCGATGATGCAGGAATGGTTCATGCTGGTTAATAAGAAAAATGCCTTAATAAGGAGGATGAACCAGCTTTCCCTCCTGGAAAAAGAGCATGACTTAGAACGAAGGTATGAGCTGCTGAACCGGGAGCTACGGGCCATGCTAGCCATTGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGAACCAGCTTTCCCTCCTG
59.6
GCAGCACTGGGGAGTAAGTT
59.96
178
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGAACCAGCTTTCCCTCCTG
59.6
TGGGGAGTAAGTTTGCCACC
59.89
171
PCR template sequence:
AGGAGGATGAACCAGCTTTCCCTCCTGGAAAAAGAGCATGACTTAGAACGAAGGTATGAGCTGCTGAACCGGGAGCTACGGGCCATGCTAGCCATTGAAGAGCAGAATAGTAAGGTGGTGGACTTGAGGCTGAAGAAGCTATTAGAAGCCCAGCCACAGGTGGCAAACTTACTCCCCAGTGCTGCGCAGAAAGCTGTAAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-434-3p(1), mmu-miR-207(1), mmu-miR-335-3p(1), mmu-miR-1904(1), mmu-miR-544-5p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTAGCCATTGAAGAGCAGAATAGTAA
siRNA sets
TATTCTGCTCTTCAATGGC, ATTCTGCTCTTCAATGGCT, TTACTATTCTGCTCTTCAA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCEHBP1_660_ORF_1
1.0608
0.344667683
0.996687488
1053
ORF sequence:
ATGAAAAGACAGAGATCAATACAGGAAGATACAAAGAGAGGAACTGAGGAGAAGGCAGAGATAACTGAAACTCAGAGGAAGCCATCAGAAGATGAAAAAGGGTTCAAAGACACCAGTCAGTATGTTGTAGGGGAATTGGCAGCACTGGAGAATGAGCAGAAGCAAATTGACACCCGTGCCGCGCTGGTGGAGAAGCGCCTCCGCTATCTCATGGACACAGGAAGGAACACGGAAGAAGAGGAGGCGATGATGCAGGAATGGTTCATGCTGGTTAATAAGAAAAATGCCTTAATAAGGAGGATGAACCAGCTTTCCCTCCTGGAAAAAGAGCATGACTTAGAACGAAGGTATGAGCTGCTGAACCGGGAGCTACGGGCCATGCTAGCCATTGAAGAGCAGAATAGTAAGGTGGTGGACTTGAGGCTGAAGAAGCTATTAGAAGCCCAGCCACAGGTGGCAAACTTACTCCCCAGTGCTGCGCAGAAAGCTGTAACCGAGGCCTCCGAGCAAGGAGAAAAGAGTGGCGTGGAAGATCTCCGGACTGAACGATTACAAAAAGCAACAGAACGTTTCAGAAATCCTGTTGTGTTTAACAAGGATTCCACAGTCAGAAAGACTCAGCTCCAGTCTTTCAGTCAGTATGTTGAGAACAGACCAGAGATGAAAAGACAGAGATCAATACAGGAAGATACAAAGAGAGGAACTGAGGAGAAGGCAGAGATAACTGAAACTCAGAGGAAGCCATCAGAAGATGAAAAAGGGTTCAAAGACACCAGTCAGTATGTTGTAGGGGAATTGGCAGCACTGGAGAATGAGCAGAAGCAAATTGACACCCGTGCCGCGCTGGTGGAGAAGCGCCTCCGCTATCTCATGGACACAGGAAGGAACACGGAAGAAGAGGAGGCGATGATGCAGGAATGGTTCATGCTGGTTAATAAGAAAAATGCCTTAATAAGGAGGATGAACCAGCTTTCCCTCCTGGAAAAAGAGCATGACTTAGAACGAAGGTATGAGCTGCTGAACCGGGAGCTACGGGCCATGCTAGCCATTGAA
Peptide sequence:
MKRQRSIQEDTKRGTEEKAEITETQRKPSEDEKGFKDTSQYVVGELAALENEQKQIDTRAALVEKRLRYLMDTGRNTEEEEAMMQEWFMLVNKKNALIRRMNQLSLLEKEHDLERRYELLNRELRAMLAIEEQNSKVVDLRLKKLLEAQPQVANLLPSAAQKAVTEASEQGEKSGVEDLRTERLQKATERFRNPVVFNKDSTVRKTQLQSFSQYVENRPEMKRQRSIQEDTKRGTEEKAEITETQRKPSEDEKGFKDTSQYVVGELAALENEQKQIDTRAALVEKRLRYLMDTGRNTEEEEAMMQEWFMLVNKKNALIRRMNQLSLLEKEHDLERRYELLNRELRAMLAIE
IRESfinder result
IRESfinder score
0.340943019
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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