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mmu_circHabp4_312
Basic information of circular RNA
PanCircBase ID:
mmu_circHabp4_312
mm39_Chr. Position ID:
chr13|64321876|64323902|+
Gene name:
Habp4
Transcript:
ENSMUST00000221904.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
3,4,5
Exon/intron offsets:
0,727,1942
Genomic length:
2026
Exon/intron sizes in nt:
159,69,84
Flanking exon/introns:
chr13:64317990-64321876|chr13:64323902-64329920
Splice length:
312
Other database IDs:
circBase: hsa_circ_0087633, circAtlas: hsa-HABP4_0012, CIRCpedia: HSA_CIRCpedia_64840
Human Ortholog IDs:
Mature spliced Sequence:
ACCAGTTGACAGGTTTGATCGAGACAGACCACTGAGAGGACGTGGAGGCCCCAGAGGAGGCCTGAGGAGCAGAGGCCGAGGCGGTCCTGGGAACAGAGCTTTTGACTCCTTTGACCAAAGAGGGAAACGAGACTTTGAGAGATACAGTAGCAATGATAAAACAAACAGAATGGAGGACAGCATGGGTGGCTGTGGCATTCGCCCCTGGGGATCAGGTAAAGACACTAGTGATACAGAGCCACCTGCACCCATGGAAGAGACCTCGATGATGGAGGAGTGCCAGGGCGCCCTGGACGAGGAGTCTGCAGCCAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGATACAGAGCCACCTGCAC
59.75
CTCCTCAGGCCTCCTCTGG
60.76
153
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTGATACAGAGCCACCTGCA
59.75
CTCCTCAGGCCTCCTCTGG
60.76
154
PCR template sequence:
CAGGTAAAGACACTAGTGATACAGAGCCACCTGCACCCATGGAAGAGACCTCGATGATGGAGGAGTGCCAGGGCGCCCTGGACGAGGAGTCTGCAGCCAAACCAGTTGACAGGTTTGATCGAGACAGACCACTGAGAGGACGTGGAGGCCCCAGAGGAGGCCTGAGGAGCAGAGGCCGAGGCGGTCCTGGGAACAGAGCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-326-3p(1), mmu-miR-136-5p(1), mmu-miR-5101(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
AGTCTGCAGCCAAACCAGTTGACAGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCHABP4_312_ORF_1
0.8641
0.353988231
0.743738565
453
ORF sequence:
ATGGAGGACAGCATGGGTGGCTGTGGCATTCGCCCCTGGGGATCAGGTAAAGACACTAGTGATACAGAGCCACCTGCACCCATGGAAGAGACCTCGATGATGGAGGAGTGCCAGGGCGCCCTGGACGAGGAGTCTGCAGCCAAACCAGTTGACAGGTTTGATCGAGACAGACCACTGAGAGGACGTGGAGGCCCCAGAGGAGGCCTGAGGAGCAGAGGCCGAGGCGGTCCTGGGAACAGAGCTTTTGACTCCTTTGACCAAAGAGGGAAACGAGACTTTGAGAGATACAGTAGCAATGATAAAACAAACAGAATGGAGGACAGCATGGGTGGCTGTGGCATTCGCCCCTGGGGATCAGGTAAAGACACTAGTGATACAGAGCCACCTGCACCCATGGAAGAGACCTCGATGATGGAGGAGTGCCAGGGCGCCCTGGACGAGGAGTCTGCAGCC
Peptide sequence:
MEDSMGGCGIRPWGSGKDTSDTEPPAPMEETSMMEECQGALDEESAAKPVDRFDRDRPLRGRGGPRGGLRSRGRGGPGNRAFDSFDQRGKRDFERYSSNDKTNRMEDSMGGCGIRPWGSGKDTSDTEPPAPMEETSMMEECQGALDEESAA
IRESfinder result
IRESfinder score
0.509274096
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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