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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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