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mmu_circAbcf2_767
Basic information of circular RNA
PanCircBase ID:
mmu_circAbcf2_767
mm39_Chr. Position ID:
chr5|24776141|24779377|-
Gene name:
Abcf2
Transcript:
ENSMUST00000030795.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
6,5,4,3
Exon/intron offsets:
0,859,2278,3023
Genomic length:
3236
Exon/intron sizes in nt:
10,39,63,55,213
Flanking exon/introns:
chr5:24774164-24776141|chr5:24779377-24781516
Splice length:
767
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
AAGTAGATTTGCTGACCAAGGAGCTGGAGGACTTTGAGATGAAGAAAGCTGCTGCTCGAGCTGTCACCGGTGTCCTGGCTTCTCACCCCAACAGTACTGATGTCCACATTATCAACCTCTCCCTTACCTTTCATGGTCAAGAGCTGCTCAGCGACACCAAACTGGAATTAAACTCAGGCCGGCGCTATGGCCTCATTGGCTTAAATGGAATTGGAAAGTCCATGCTGCTCTCGGCTATTGGGAAACGTGAAGTGCCCATCCCAGAGCACATCGACATCTACCATCTGACTCGTGAGATGCCTCCTAGCGAAAAAACACCCTTGCAGTGTGTGATGGAGGTGGACACAGAGCGGGCCATGCTGGAGAGAGAGGCTGAGCGGTTAGCACATGAGGATGCGGAGTGTGAAAAGCTCATGGAGCTCTATGAACGGCTGGAAGAGCTGGATGCTGACAAAGCTGAGATGAGGGCCTCAAGGATCTTACATGGATTGGGCTTCACACCTGCTATGCAGCGCAAGAAGCTGAAAGACTTCAGTGGTGGCTGGCGGATGAGAGTTGCTCTTGCTAGAGCCCTCTTTATTCGGCCCTTCATGCTGCTTCTGGACGAGCCTACCAACCACCTGGACCTCGATGCTTGTGTGTGGCTGGAAGAGGAACTTAAGACTTTCAAGCGCATCCTGGTCCTGGTGTCCCATTCCCAGGACTTCCTGAATGGGGTCTGTACCAATATCATCCATATGCACAACAAGAAACTCAAGTATTACACG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTGGTCCTGGTGTCCCATTC
60.04
GGTGAGAAGCCAGGACACC
60
177
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTGGTCCTGGTGTCCCATTC
60.04
GGGTGAGAAGCCAGGACAC
60
178
PCR template sequence:
CAAGCGCATCCTGGTCCTGGTGTCCCATTCCCAGGACTTCCTGAATGGGGTCTGTACCAATATCATCCATATGCACAACAAGAAACTCAAGTATTACACGAAGTAGATTTGCTGACCAAGGAGCTGGAGGACTTTGAGATGAAGAAAGCTGCTGCTCGAGCTGTCACCGGTGTCCTGGCTTCTCACCCCAACAGTACTGA
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-335-5p(1), mmu-miR-362-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CAAGTATTACACGAAGTAGATTTGCT
siRNA sets
ATCTACTTCGTGTAATACT, AATCTACTTCGTGTAATAC, CTACTTCGTGTAATACTTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCABCF2_767_ORF_1
1.3023
0.40024024
0.983427052
735
ORF sequence:
ATGAAGAAAGCTGCTGCTCGAGCTGTCACCGGTGTCCTGGCTTCTCACCCCAACAGTACTGATGTCCACATTATCAACCTCTCCCTTACCTTTCATGGTCAAGAGCTGCTCAGCGACACCAAACTGGAATTAAACTCAGGCCGGCGCTATGGCCTCATTGGCTTAAATGGAATTGGAAAGTCCATGCTGCTCTCGGCTATTGGGAAACGTGAAGTGCCCATCCCAGAGCACATCGACATCTACCATCTGACTCGTGAGATGCCTCCTAGCGAAAAAACACCCTTGCAGTGTGTGATGGAGGTGGACACAGAGCGGGCCATGCTGGAGAGAGAGGCTGAGCGGTTAGCACATGAGGATGCGGAGTGTGAAAAGCTCATGGAGCTCTATGAACGGCTGGAAGAGCTGGATGCTGACAAAGCTGAGATGAGGGCCTCAAGGATCTTACATGGATTGGGCTTCACACCTGCTATGCAGCGCAAGAAGCTGAAAGACTTCAGTGGTGGCTGGCGGATGAGAGTTGCTCTTGCTAGAGCCCTCTTTATTCGGCCCTTCATGCTGCTTCTGGACGAGCCTACCAACCACCTGGACCTCGATGCTTGTGTGTGGCTGGAAGAGGAACTTAAGACTTTCAAGCGCATCCTGGTCCTGGTGTCCCATTCCCAGGACTTCCTGAATGGGGTCTGTACCAATATCATCCATATGCACAACAAGAAACTCAAGTATTACACGAAGTAG
Peptide sequence:
MKKAAARAVTGVLASHPNSTDVHIINLSLTFHGQELLSDTKLELNSGRRYGLIGLNGIGKSMLLSAIGKREVPIPEHIDIYHLTREMPPSEKTPLQCVMEVDTERAMLEREAERLAHEDAECEKLMELYERLEELDADKAEMRASRILHGLGFTPAMQRKKLKDFSGGWRMRVALARALFIRPFMLLLDEPTNHLDLDACVWLEEELKTFKRILVLVSHSQDFLNGVCTNIIHMHNKKLKYYTK
IRESfinder result
IRESfinder score
0.355542852
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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