top of page

mmu_circBbs9_453

Basic information of circular RNA
PanCircBase ID:

mmu_circBbs9_453

mm39_Chr. Position ID:

chr9|22402113|22425389|+

Gene name:

Bbs9

Transcript:

ENSMUST00000039798.16

CircRNA type:

Exonic circular (circ)RNA

Exon/Intron count:

4

Exon/intron indexes:

2,3,4,5

Exon/intron offsets:

0,5891,13227,23162

Genomic length:

23276

Exon/intron sizes in nt:

123,151,65,114

Flanking exon/introns:

chr9:22387351-22402113|chr9:22425389-22479000

Splice length:

453

Other database IDs:

circBase: mmu_circ_0001754, CIRCpedia: MMU_CIRCpedia_13559, circAtlas: mmu-Bbs9_0016

circBase: hsa_circ_0003162, circAtlas: hsa-BBS9_0009, CIRCpedia: HSA_CIRCpedia_57924

Human Ortholog IDs:
Mature spliced Sequence:

GTTGAAAGGAAATGTCCTTATTTAAAGCCCGTGACTGGTGGTCTACTGTGTTGGGAGAAAAAGAAGAATTTGACCAGGGCTGCTTATGCTTGGCTGATGTGGACAACAGTGGGAACGGCCACGATAAAATCATTGTGGGCAGCTTCATGGGCTACCTGAGAATCTTTAGTCCCCATTCTGTAAAAGCTGGAGGTGGGCCTCAGGCTGAAGATTTACTTCTAGAAGTGCATCTGCGGGACCCAGTGCTGCAAGTGGAAGTCGGGAAGTTTGTCTCGGGCACCGAGATGCTTCATCTGGCCGTGCTGCACTCCCGGAAGCTCTGTGTCTACTCCGTCTCAGGGACATTGGGAAATGTGGAACATGGAAACCAATATCAGATAAAACTAATGTATGAGCACCATCTTCAGAGGACGGCCTGCAATATGACGTATGGACCCTTTGGTGGTGTAAAAG

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

CACCATCTTCAGAGGACGGC

60.46

AAGCATAAGCAGCCCTGGTC

60.39

149

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

GCACCATCTTCAGAGGACGG

60.46

AAGCATAAGCAGCCCTGGTC

60.39

150

PCR template sequence:

GTGGAACATGGAAACCAATATCAGATAAAACTAATGTATGAGCACCATCTTCAGAGGACGGCCTGCAATATGACGTATGGACCCTTTGGTGGTGTAAAAGGTTGAAAGGAAATGTCCTTATTTAAAGCCCGTGACTGGTGGTCTACTGTGTTGGGAGAAAAAGAAGAATTTGACCAGGGCTGCTTATGCTTGGCTGATGT

Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs

5

Interacting miRNAs (#binding sites)

mmu-miR-150-5p(1), mmu-miR-125b-5p(1), mmu-miR-125a-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-670-5p(1)

siRNAs for circular RNA silencing
Junction sequence

GGTGGTGTAAAAGGTTGAAAGGAAAT

siRNA sets

TTTCCTTTCAACCTTTTAC, TTCCTTTCAACCTTTTACA, ATTTCCTTTCAACCTTTTA

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

CIRCBBS9_453_ORF_1

0.9261

0.160904004

0.58455031

447

ORF sequence:

ATGTCCTTATTTAAAGCCCGTGACTGGTGGTCTACTGTGTTGGGAGAAAAAGAAGAATTTGACCAGGGCTGCTTATGCTTGGCTGATGTGGACAACAGTGGGAACGGCCACGATAAAATCATTGTGGGCAGCTTCATGGGCTACCTGAGAATCTTTAGTCCCCATTCTGTAAAAGCTGGAGGTGGGCCTCAGGCTGAAGATTTACTTCTAGAAGTGCATCTGCGGGACCCAGTGCTGCAAGTGGAAGTCGGGAAGTTTGTCTCGGGCACCGAGATGCTTCATCTGGCCGTGCTGCACTCCCGGAAGCTCTGTGTCTACTCCGTCTCAGGGACATTGGGAAATGTGGAACATGGAAACCAATATCAGATAAAACTAATGTATGAGCACCATCTTCAGAGGACGGCCTGCAATATGACGTATGGACCCTTTGGTGGTGTAAAAGGTTGA

Peptide sequence:

MSLFKARDWWSTVLGEKEEFDQGCLCLADVDNSGNGHDKIIVGSFMGYLRIFSPHSVKAGGGPQAEDLLLEVHLRDPVLQVEVGKFVSGTEMLHLAVLHSRKLCVYSVSGTLGNVEHGNQYQIKLMYEHHLQRTACNMTYGPFGGVKG

IRESfinder result

IRESfinder score

0.529342999

IRES/non IRES

IRES

riboCIRC information

riboCIRC ID

NA

NA

Evidence
Peptide sequence:

NA

logo.png

Institute of Life sciences, Bhubaneswar, India

bottom of page