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mmu_circB4galt5_769
Basic information of circular RNA
PanCircBase ID:
mmu_circB4galt5_769
mm39_Chr. Position ID:
chr2|167143929|167151256|-
Gene name:
B4galt5
Transcript:
ENSMUST00000109221.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
8,7,6,5,4,3
Exon/intron offsets:
0,2986,3650,4581,5534,7213
Genomic length:
7327
Exon/intron sizes in nt:
1,02,12,31,88,11,71,25,000
Flanking exon/introns:
chr2:167143403-167143929|chr2:167151256-167155006
Splice length:
769
Other database IDs:
circAtlas: mmu-B4galt5_0006
Human Ortholog IDs:
Mature spliced Sequence:
ATTATCCTCTGGACTTGAACCACAGTGAAGCCTTTCCCCCAACCACGACCTTTCTTCCTGAAGATTTCACCTACTTTGCCAACCACCCTTGCCCAGAGAGGCTCCCTTCCATGAAGGGCCCGATAGATATAAACATGAGTGAGATCGCAATGGACGATATTCATGAGCTGTTCTCCAGAGACCCGGCCATTAAGCTCGGAGGGCACTGGAAGCCTGCAGACTGTGTGCCTCGGTGGAAGGTGGCTATCCTCATCCCCTTCCGGAACCGCCATGAGCACCTCCCGGTCCTCCTGAGACACCTGCTCCCCATGCTTCAGCGCCAGCGCCTGCAGTTCGCCTTCTATGTGATCGAGCAAGTTGGCACCCAGCCCTTTAACCGAGCCATGCTTTTCAATGTTGGTTTTCAAGAAGCCATGAAGGACTTGGATTGGGATTGTCTGATCTTCCATGACGTCGATCACATACCTGAGAGTGACCGAAACTACTATGGCTGCGGGCAGATGCCCAGGCACTTTGCAACCAAGCTGGACAAGTACATGTACCTGCTGCCCTACACTGAGTTTTTTGGTGGCGTGAGCGGCCTGACTGTAGAACAGTTTCGGAAAATCAATGGCTTTCCTAATGCCTTCTGGGGCTGGGGCGGAGAAGATGACGACTTGTGGAACAGGGTACAAAATGCAGGCTATTCTGTGAGCCGGCCAGAAGGGGACACAGGAAAATACAAGTCCATTCCTCACCACCATCGAGGAGAGGTCCAGTTTCTTGGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTATTCTGTGAGCCGGCCAG
60.53
AGGGTGGTTGGCAAAGTAGG
59.89
176
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTATTCTGTGAGCCGGCCAG
60.53
GGGTGGTTGGCAAAGTAGGT
60.18
175
PCR template sequence:
TACAAAATGCAGGCTATTCTGTGAGCCGGCCAGAAGGGGACACAGGAAAATACAAGTCCATTCCTCACCACCATCGAGGAGAGGTCCAGTTTCTTGGCAGATTATCCTCTGGACTTGAACCACAGTGAAGCCTTTCCCCCAACCACGACCTTTCTTCCTGAAGATTTCACCTACTTTGCCAACCACCCTTGCCCAGAGAG
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-135a-5p(1), mmu-miR-205-5p(1), mmu-miR-139-5p(1), mmu-miR-214-3p(1), mmu-miR-182-5p(1), mmu-miR-680(1), mmu-miR-207(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGTTTCTTGGCAGATTATCCTCTGGA
siRNA sets
AGAGGATAATCTGCCAAGA,GATAATCTGCCAAGAAACT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCB4GALT5_769_ORF_1
1.0873
0.315870442
0.95221163
687
ORF sequence:
ATGAAGGGCCCGATAGATATAAACATGAGTGAGATCGCAATGGACGATATTCATGAGCTGTTCTCCAGAGACCCGGCCATTAAGCTCGGAGGGCACTGGAAGCCTGCAGACTGTGTGCCTCGGTGGAAGGTGGCTATCCTCATCCCCTTCCGGAACCGCCATGAGCACCTCCCGGTCCTCCTGAGACACCTGCTCCCCATGCTTCAGCGCCAGCGCCTGCAGTTCGCCTTCTATGTGATCGAGCAAGTTGGCACCCAGCCCTTTAACCGAGCCATGCTTTTCAATGTTGGTTTTCAAGAAGCCATGAAGGACTTGGATTGGGATTGTCTGATCTTCCATGACGTCGATCACATACCTGAGAGTGACCGAAACTACTATGGCTGCGGGCAGATGCCCAGGCACTTTGCAACCAAGCTGGACAAGTACATGTACCTGCTGCCCTACACTGAGTTTTTTGGTGGCGTGAGCGGCCTGACTGTAGAACAGTTTCGGAAAATCAATGGCTTTCCTAATGCCTTCTGGGGCTGGGGCGGAGAAGATGACGACTTGTGGAACAGGGTACAAAATGCAGGCTATTCTGTGAGCCGGCCAGAAGGGGACACAGGAAAATACAAGTCCATTCCTCACCACCATCGAGGAGAGGTCCAGTTTCTTGGCAGATTATCCTCTGGACTTGAACCACAGTGA
Peptide sequence:
MKGPIDINMSEIAMDDIHELFSRDPAIKLGGHWKPADCVPRWKVAILIPFRNRHEHLPVLLRHLLPMLQRQRLQFAFYVIEQVGTQPFNRAMLFNVGFQEAMKDLDWDCLIFHDVDHIPESDRNYYGCGQMPRHFATKLDKYMYLLPYTEFFGGVSGLTVEQFRKINGFPNAFWGWGGEDDDLWNRVQNAGYSVSRPEGDTGKYKSIPHHHRGEVQFLGRLSSGLEPQ
IRESfinder result
IRESfinder score
0.363693419
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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