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mmu_circAbcb10_589
Basic information of circular RNA
PanCircBase ID:
mmu_circAbcb10_589
mm39_Chr. Position ID:
chr8|124688734|124693351|-
Gene name:
Abcb10
Transcript:
ENSMUST00000075578.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
8,7,6,5
Exon/intron offsets:
0,997,2995,4470
Genomic length:
4617
Exon/intron sizes in nt:
21,09,61,36,147
Flanking exon/introns:
chr8:124687028-124688734|chr8:124693351-124694739
Splice length:
589
Other database IDs:
CIRCpedia: MMU_CIRCpedia_224942, circAtlas: mmu-Abcb10_0005
Human Ortholog IDs:
Mature spliced Sequence:
CTAGCCGAGGAGCGGATTGGAAACATAAGAACCATCCGAGCTTTTGGGAAGGAGATGACGGAAGTGGAGAAGTACACCGGCCGAGTGGACCAGTTGCTGCAGCTGGCACAGAAGGAGGCCTTGGCACGAGCCGGCTTCTTTGGAGCAGCTGGGCTCTCAGGAAACCTGATTGTGCTGTCTGTCCTGTACAAAGGAGGCCTGCTGATGGGCAGTGCCCATATGACAGTGGGCGAGCTCTCTTCCTTCCTCATGTACGCTTTCTGGGTTGGATTGAGCATCGGAGGACTGAGTTCATTCTACTCCGAGCTGATGAAAGGCCTGGGTGCTGGTGGGCGGCTCTGGGAGCTGCTGGAGAGACAGCCACGGCTGCCTTTTAACGAGGGGATGGTGTTAGATGAGAAAACCTTCCAGGGTGCCCTGGAGTTCAGAAACGTGCACTTCACATACCCTGCTCGCCCAGAGGTGTCCGTATTCCAGGATTTCAGTCTTTCCATCCCATCTGGATCTGTCACAGCGCTGGTTGGCCCAAGTGGTTCTGGGAAATCAACAGTGGTTTCGCTCCTGCTGCGGTTGTACGACCCTAATTCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATCTGGATCTGTCACAGCGC
60.18
GCCGGTGTACTTCTCCACTT
59.68
173
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATCTGGATCTGTCACAGCGC
60.18
CTCCTTCCCAAAAGCTCGGA
59.68
146
PCR template sequence:
TCCATCCCATCTGGATCTGTCACAGCGCTGGTTGGCCCAAGTGGTTCTGGGAAATCAACAGTGGTTTCGCTCCTGCTGCGGTTGTACGACCCTAATTCTGCTAGCCGAGGAGCGGATTGGAAACATAAGAACCATCCGAGCTTTTGGGAAGGAGATGACGGAAGTGGAGAAGTACACCGGCCGAGTGGACCAGTTGCTGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-207(1), mmu-miR-544-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GACCCTAATTCTGCTAGCCGAGGAGC
siRNA sets
TCGGCTAGCAGAATTAGGG, CTCGGCTAGCAGAATTAGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCABCB10_589_ORF_1
0.6506
0.208507369
0.966849665
912
ORF sequence:
ATGACGGAAGTGGAGAAGTACACCGGCCGAGTGGACCAGTTGCTGCAGCTGGCACAGAAGGAGGCCTTGGCACGAGCCGGCTTCTTTGGAGCAGCTGGGCTCTCAGGAAACCTGATTGTGCTGTCTGTCCTGTACAAAGGAGGCCTGCTGATGGGCAGTGCCCATATGACAGTGGGCGAGCTCTCTTCCTTCCTCATGTACGCTTTCTGGGTTGGATTGAGCATCGGAGGACTGAGTTCATTCTACTCCGAGCTGATGAAAGGCCTGGGTGCTGGTGGGCGGCTCTGGGAGCTGCTGGAGAGACAGCCACGGCTGCCTTTTAACGAGGGGATGGTGTTAGATGAGAAAACCTTCCAGGGTGCCCTGGAGTTCAGAAACGTGCACTTCACATACCCTGCTCGCCCAGAGGTGTCCGTATTCCAGGATTTCAGTCTTTCCATCCCATCTGGATCTGTCACAGCGCTGGTTGGCCCAAGTGGTTCTGGGAAATCAACAGTGGTTTCGCTCCTGCTGCGGTTGTACGACCCTAATTCTGCTAGCCGAGGAGCGGATTGGAAACATAAGAACCATCCGAGCTTTTGGGAAGGAGATGACGGAAGTGGAGAAGTACACCGGCCGAGTGGACCAGTTGCTGCAGCTGGCACAGAAGGAGGCCTTGGCACGAGCCGGCTTCTTTGGAGCAGCTGGGCTCTCAGGAAACCTGATTGTGCTGTCTGTCCTGTACAAAGGAGGCCTGCTGATGGGCAGTGCCCATATGACAGTGGGCGAGCTCTCTTCCTTCCTCATGTACGCTTTCTGGGTTGGATTGAGCATCGGAGGACTGAGTTCATTCTACTCCGAGCTGATGAAAGGCCTGGGTGCTGGTGGGCGGCTCTGGGAGCTGCTGGAGAGACAGCCACGGCTGCCTTTTAA
Peptide sequence:
MTEVEKYTGRVDQLLQLAQKEALARAGFFGAAGLSGNLIVLSVLYKGGLLMGSAHMTVGELSSFLMYAFWVGLSIGGLSSFYSELMKGLGAGGRLWELLERQPRLPFNEGMVLDEKTFQGALEFRNVHFTYPARPEVSVFQDFSLSIPSGSVTALVGPSGSGKSTVVSLLLRLYDPNSASRGADWKHKNHPSFWEGDDGSGEVHRPSGPVAAAGTEGGLGTSRLLWSSWALRKPDCAVCPVQRRPADGQCPYDSGRALFLPHVRFLGWIEHRRTEFILLRADERPGCWWAALGAAGETATAAF
IRESfinder result
IRESfinder score
0.451034254
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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