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mmu_circAbcb9_675
Basic information of circular RNA
PanCircBase ID:
mmu_circAbcb9_675
mm39_Chr. Position ID:
chr5|124227650|124228325|-
Gene name:
Abcb9
Transcript:
ENSMUST00000031354.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
2
Exon/intron offsets:
0
Genomic length:
675
Exon/intron sizes in nt:
675
Flanking exon/introns:
chr5:124221783-124227650|chr5:124228325-124233708
Splice length:
675
Other database IDs:
CIRCpedia: MMU_CIRCpedia_214934, circAtlas: mmu-Abcb9_0002
circBase: hsa_circ_0097680, circAtlas: hsa-ABCB9_0003, CIRCpedia: HSA_CIRCpedia_72802
Human Ortholog IDs:
Mature spliced Sequence:
GTGTGGCCCTGCCCAGCTGTCAGTGATGGCCTTGCCCCGGTGAGCCAAAGCCTGCCCCTCTCACCCGCCGGCCACCAGCCAGCAGGATGAGGCTGTGGAAGGCGGTAGTAGTGACGCTGGCCTTCGTGAGCACGGACGTCGGGGTGACCACGGCCATCTACGCCTTCAGCCACCTGGACCGTAGCCTGCTGGAGGACATCCGACACTTTAACATCTTCGACTCGGTGCTGGACCTCTGGGCTGCCTGCCTGTACCGCAGCTGCCTGCTGCTGGGGGCTACCATAGGCGTGGCCAAGAACAGCGCTCTGGGGCCAAGGCGCCTGCGGGCTTCGTGGCTCGTCATCACCCTCGTGTGCCTCTTTGTGGGCATCTATGCCATGGCCAAACTGCTACTCTTCTCAGAAGTGCGCAGGCCCATCCGGGACCCATGGTTCTGGGCGCTCTTCGTGTGGACCTACATCTCGCTGGCTGCCTCCTTCCTGCTGTGGGGGCTGCTGGCCACTGTGCGGCCGGACGCAGAGGCCCTGGAGCCAGGGAATGAGGGCTTCCACGGGGAGGGTGGGGCCCCTGCTGAGCAGGCATCGGGAGCCACACTACAGAAGCTGTTGTCCTACACAAAGCCTGACGTGGCCTTCCTAGTAGCTGCCTCCTTTTTCCTCATCGTAGCAGCTCTGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GACGTGGCCTTCCTAGTAGC
59.9
TTCCACAGCCTCATCCTGCT
61.2
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGTGGCCTTCCTAGTAGCTG
59.9
TTCCACAGCCTCATCCTGCT
61.2
150
PCR template sequence:
CAGGCATCGGGAGCCACACTACAGAAGCTGTTGTCCTACACAAAGCCTGACGTGGCCTTCCTAGTAGCTGCCTCCTTTTTCCTCATCGTAGCAGCTCTGGGTGTGGCCCTGCCCAGCTGTCAGTGATGGCCTTGCCCCGGTGAGCCAAAGCCTGCCCCTCTCACCCGCCGGCCACCAGCCAGCAGGATGAGGCTGTGGAA
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-296-5p(1), mmu-miR-27a-3p(1), mmu-miR-709(1), mmu-miR-214-3p(1), mmu-miR-128-3p(1), mmu-miR-149-5p(1), mmu-miR-370-3p(1), mmu-miR-690(1)
siRNAs for circular RNA silencing
Junction sequence
GTAGCAGCTCTGGGTGTGGCCCTGCC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCABCB9_675_ORF_1
1.2788
0.472457558
0.969914618
615
ORF sequence:
ATGAGGCTGTGGAAGGCGGTAGTAGTGACGCTGGCCTTCGTGAGCACGGACGTCGGGGTGACCACGGCCATCTACGCCTTCAGCCACCTGGACCGTAGCCTGCTGGAGGACATCCGACACTTTAACATCTTCGACTCGGTGCTGGACCTCTGGGCTGCCTGCCTGTACCGCAGCTGCCTGCTGCTGGGGGCTACCATAGGCGTGGCCAAGAACAGCGCTCTGGGGCCAAGGCGCCTGCGGGCTTCGTGGCTCGTCATCACCCTCGTGTGCCTCTTTGTGGGCATCTATGCCATGGCCAAACTGCTACTCTTCTCAGAAGTGCGCAGGCCCATCCGGGACCCATGGTTCTGGGCGCTCTTCGTGTGGACCTACATCTCGCTGGCTGCCTCCTTCCTGCTGTGGGGGCTGCTGGCCACTGTGCGGCCGGACGCAGAGGCCCTGGAGCCAGGGAATGAGGGCTTCCACGGGGAGGGTGGGGCCCCTGCTGAGCAGGCATCGGGAGCCACACTACAGAAGCTGTTGTCCTACACAAAGCCTGACGTGGCCTTCCTAGTAGCTGCCTCCTTTTTCCTCATCGTAGCAGCTCTGGGTGTGGCCCTGCCCAGCTGTCAGTGA
Peptide sequence:
MRLWKAVVVTLAFVSTDVGVTTAIYAFSHLDRSLLEDIRHFNIFDSVLDLWAACLYRSCLLLGATIGVAKNSALGPRRLRASWLVITLVCLFVGIYAMAKLLLFSEVRRPIRDPWFWALFVWTYISLAASFLLWGLLATVRPDAEALEPGNEGFHGEGGAPAEQASGATLQKLLSYTKPDVAFLVAASFFLIVAALGVALPSCQ
IRESfinder result
IRESfinder score
0.282437233
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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