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mmu_circBabam2_408
Basic information of circular RNA
PanCircBase ID:
mmu_circBabam2_408
mm39_Chr. Position ID:
chr5|32158704|32215008|+
Gene name:
Babam2
Transcript:
ENSMUST00000201352.4
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
8,9,10,11
Exon/intron offsets:
0,3349,5874,56150
Genomic length:
56304
Exon/intron sizes in nt:
1,00,71,83,154
Flanking exon/introns:
chr5:32058508-32158704|chr5:32215008-32241924
Splice length:
408
Other database IDs:
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_134030
Human Ortholog IDs:
Mature spliced Sequence:
TGCACTCGGAGGCTCCTCTGCTCTTCACATCCCTGCTTTCCCCGGAGGAGGATGTCTCATTGATTATGTGCCTCAAGTGTGCCACCTGCTCACCAACAAGGTACAGTATGTGATTCAAGGCTATCACAAAAGAAGAGAGTACATCGCAGCTTTCCTCAGTCACTTTGGCACAGGTGTCGTGGAATATGATGCAGAAGGCTTCACAAAACTTACTCTGCTGCTGATGTGGAAAGACTTTTGTTTTCTTGTCCACATTGACCTGCCCCTGTTTTTCCCTCGAGATCAGCCTACGCTCACATTTCAGTCAGTCTATCACTTTACCAACAGTGGACAGCTTTACTCCCAAGCACAAAAAAACTACCCATACAGCCCCAGATGGGATGGAAATGAAATGGCCAAGAGAGCAAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGACAGCTTTACTCCCAAGC
60.27
TGGCACACTTGAGGCACATA
59.6
165
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGACAGCTTTACTCCCAAGC
60.27
ATGAGACATCCTCCTCCGGG
60.47
141
PCR template sequence:
TCTATCACTTTACCAACAGTGGACAGCTTTACTCCCAAGCACAAAAAAACTACCCATACAGCCCCAGATGGGATGGAAATGAAATGGCCAAGAGAGCAAATGCACTCGGAGGCTCCTCTGCTCTTCACATCCCTGCTTTCCCCGGAGGAGGATGTCTCATTGATTATGTGCCTCAAGTGTGCCACCTGCTCACCAACAAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-298-5p(1), mmu-miR-697(1)
siRNAs for circular RNA silencing
Junction sequence
CCAAGAGAGCAAATGCACTCGGAGGC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBABAM2_408_ORF_1
0.688
0.112980202
0.677869127
591
ORF sequence:
ATGTGGAAAGACTTTTGTTTTCTTGTCCACATTGACCTGCCCCTGTTTTTCCCTCGAGATCAGCCTACGCTCACATTTCAGTCAGTCTATCACTTTACCAACAGTGGACAGCTTTACTCCCAAGCACAAAAAAACTACCCATACAGCCCCAGATGGGATGGAAATGAAATGGCCAAGAGAGCAAATGCACTCGGAGGCTCCTCTGCTCTTCACATCCCTGCTTTCCCCGGAGGAGGATGTCTCATTGATTATGTGCCTCAAGTGTGCCACCTGCTCACCAACAAGGTACAGTATGTGATTCAAGGCTATCACAAAAGAAGAGAGTACATCGCAGCTTTCCTCAGTCACTTTGGCACAGGTGTCGTGGAATATGATGCAGAAGGCTTCACAAAACTTACTCTGCTGCTGATGTGGAAAGACTTTTGTTTTCTTGTCCACATTGACCTGCCCCTGTTTTTCCCTCGAGATCAGCCTACGCTCACATTTCAGTCAGTCTATCACTTTACCAACAGTGGACAGCTTTACTCCCAAGCACAAAAAAACTACCCATACAGCCCCAGATGGGATGGAAATGAAATGGCCAAGAGAGCA
Peptide sequence:
MWKDFCFLVHIDLPLFFPRDQPTLTFQSVYHFTNSGQLYSQAQKNYPYSPRWDGNEMAKRANALGGSSALHIPAFPGGGCLIDYVPQVCHLLTNKVQYVIQGYHKRREYIAAFLSHFGTGVVEYDAEGFTKLTLLLMWKDFCFLVHIDLPLFFPRDQPTLTFQSVYHFTNSGQLYSQAQKNYPYSPRWDGNEMAKRA
IRESfinder result
IRESfinder score
0.700901612
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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