top of page
mmu_circCacna1b_690
Basic information of circular RNA
PanCircBase ID:
mmu_circCacna1b_690
mm39_Chr. Position ID:
chr2|24592519|24611423|-
Gene name:
Cacna1b
Transcript:
ENSMUST00000070864.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
12,11,10,9,8,7
Exon/intron offsets:
0,3627,15522,16537,17433,18800
Genomic length:
18904
Exon/intron sizes in nt:
1,13,21,09,05,71,16,100
Flanking exon/introns:
chr2:24590050-24592519|chr2:24611423-24620682
Splice length:
690
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
ACAAATGATGCGGCTGGCAACACATGGAACTGGTTGTACTTCATCCCCCTCATCATCATTGGCTCCTTCTTCATGCTCAACCTGGTGCTGGGTGTGCTTTCCGGAGAGTTTGCCAAGGAGCGGGAGCGAGTCGAGAACCGCCGCGCCTTCCTGAAGCTCCGCAGGCAGCAGCAGATTGAGCGAGAGCTGAATGGGTACTTGGAGTGGATCTTCAAGGCAGAGGAAGTCATGTTGGCAGAGGAGGACAAGAATGCAGAAGAGAAATCCCCTTTGGATGTGTTGAAGAGAGCTGCCACCAAGAAGAGCCGAAATGACCTCATCCATGCAGAAGAGGGGGAGGACCGGTTTGTAGACCTCTGTGCAGTTGGGTCTCCATTTGCTCGTGCCAGCCTCAAGAGTGGGAAGACGGAGAGCTCATCGTACTTCCGGAGAAAGGAGAAGATGTTCCGGTTCTTTATCCGGCGTATGGTGAAAGCACAGAGCTTCTACTGGGTGGTACTGTGTGTGGTGGCCCTGAACACACTGTGTGTGGCCATGGTGCACTATAATCAGCCTCAGCGGCTTACCACTGCACTGTACTTTGCAGAGTTTGTTTTCCTGGGTCTCTTCCTCACAGAGATGTCCCTGAAGATGTATGGCCTAGGGCCCAGAAGTTACTTCAGGTCTTCCTTCAACTGCTTTGACTTTGGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCCTAGGGCCCAGAAGTTAC
59.82
AGCACCAGGTTGAGCATGAA
59.89
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCCTAGGGCCCAGAAGTTAC
59.82
GCACCAGGTTGAGCATGAAG
59.48
141
PCR template sequence:
TGTTTTCCTGGGTCTCTTCCTCACAGAGATGTCCCTGAAGATGTATGGCCTAGGGCCCAGAAGTTACTTCAGGTCTTCCTTCAACTGCTTTGACTTTGGGACAAATGATGCGGCTGGCAACACATGGAACTGGTTGTACTTCATCCCCCTCATCATCATTGGCTCCTTCTTCATGCTCAACCTGGTGCTGGGTGTGCTTT
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-7b-5p(1), mmu-miR-7a-5p(1), mmu-miR-182-5p(1), mmu-miR-1198-5p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
CTTTGACTTTGGGACAAATGATGCGG
siRNA sets
ATCATTTGTCCCAAAGTCA, CATCATTTGTCCCAAAGTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCACNA1B_690_ORF_1
1.2703
0.413793728
0.999730246
1308
ORF sequence:
ATGCTCAACCTGGTGCTGGGTGTGCTTTCCGGAGAGTTTGCCAAGGAGCGGGAGCGAGTCGAGAACCGCCGCGCCTTCCTGAAGCTCCGCAGGCAGCAGCAGATTGAGCGAGAGCTGAATGGGTACTTGGAGTGGATCTTCAAGGCAGAGGAAGTCATGTTGGCAGAGGAGGACAAGAATGCAGAAGAGAAATCCCCTTTGGATGTGTTGAAGAGAGCTGCCACCAAGAAGAGCCGAAATGACCTCATCCATGCAGAAGAGGGGGAGGACCGGTTTGTAGACCTCTGTGCAGTTGGGTCTCCATTTGCTCGTGCCAGCCTCAAGAGTGGGAAGACGGAGAGCTCATCGTACTTCCGGAGAAAGGAGAAGATGTTCCGGTTCTTTATCCGGCGTATGGTGAAAGCACAGAGCTTCTACTGGGTGGTACTGTGTGTGGTGGCCCTGAACACACTGTGTGTGGCCATGGTGCACTATAATCAGCCTCAGCGGCTTACCACTGCACTGTACTTTGCAGAGTTTGTTTTCCTGGGTCTCTTCCTCACAGAGATGTCCCTGAAGATGTATGGCCTAGGGCCCAGAAGTTACTTCAGGTCTTCCTTCAACTGCTTTGACTTTGGGACAAATGATGCGGCTGGCAACACATGGAACTGGTTGTACTTCATCCCCCTCATCATCATTGGCTCCTTCTTCATGCTCAACCTGGTGCTGGGTGTGCTTTCCGGAGAGTTTGCCAAGGAGCGGGAGCGAGTCGAGAACCGCCGCGCCTTCCTGAAGCTCCGCAGGCAGCAGCAGATTGAGCGAGAGCTGAATGGGTACTTGGAGTGGATCTTCAAGGCAGAGGAAGTCATGTTGGCAGAGGAGGACAAGAATGCAGAAGAGAAATCCCCTTTGGATGTGTTGAAGAGAGCTGCCACCAAGAAGAGCCGAAATGACCTCATCCATGCAGAAGAGGGGGAGGACCGGTTTGTAGACCTCTGTGCAGTTGGGTCTCCATTTGCTCGTGCCAGCCTCAAGAGTGGGAAGACGGAGAGCTCATCGTACTTCCGGAGAAAGGAGAAGATGTTCCGGTTCTTTATCCGGCGTATGGTGAAAGCACAGAGCTTCTACTGGGTGGTACTGTGTGTGGTGGCCCTGAACACACTGTGTGTGGCCATGGTGCACTATAATCAGCCTCAGCGGCTTACCACTGCACTGTACTTTGCAGAGTTTGTTTTCCTGGGTCTCTTCCTCACAGAGATGTCCCTGAAGATGTATGGCCTAGGGCCCAGAAGTTACTTCAGGTCTTCCTTCAACTGCTTTGACTTTGGG
Peptide sequence:
MLNLVLGVLSGEFAKERERVENRRAFLKLRRQQQIERELNGYLEWIFKAEEVMLAEEDKNAEEKSPLDVLKRAATKKSRNDLIHAEEGEDRFVDLCAVGSPFARASLKSGKTESSSYFRRKEKMFRFFIRRMVKAQSFYWVVLCVVALNTLCVAMVHYNQPQRLTTALYFAEFVFLGLFLTEMSLKMYGLGPRSYFRSSFNCFDFGTNDAAGNTWNWLYFIPLIIIGSFFMLNLVLGVLSGEFAKERERVENRRAFLKLRRQQQIERELNGYLEWIFKAEEVMLAEEDKNAEEKSPLDVLKRAATKKSRNDLIHAEEGEDRFVDLCAVGSPFARASLKSGKTESSSYFRRKEKMFRFFIRRMVKAQSFYWVVLCVVALNTLCVAMVHYNQPQRLTTALYFAEFVFLGLFLTEMSLKMYGLGPRSYFRSSFNCFDFG
IRESfinder result
IRESfinder score
0.436201199
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page