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mmu_circFndc3a_770
Basic information of circular RNA
PanCircBase ID:
mmu_circFndc3a_770
mm39_Chr. Position ID:
chr14|72804749|72820455|-
Gene name:
Fndc3a
Transcript:
ENSMUST00000089017.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
13,12,11,10,9,8,7
Exon/intron offsets:
0,1532,4125,5980,7042,7213,15647
Genomic length:
15706
Exon/intron sizes in nt:
175,125,54,139,60,158,59
Flanking exon/introns:
chr14:72803623-72804749|chr14:72820455-72822014
Splice length:
770
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
AAAAAGATGAAGAAACTAAAGCATTTGAAGCATTTCTTTCCAACATTGTCAAGCCAGTGGCCTCAGACATTCAGGCAAGGACTGTCCTGCTCACCTGGTCGCCACCATCCAGCTTCATTAACGGCGAAGTGAACGAGACAGCTGTACCAGAGCTCTTCAATTATGAAGTCCTGGTTTCCAGCACTGGGAAGGAAGGGAAATACAGAAGTGTTTATATAGGAGAAGAAACAAGTGTCACTTTAAATGATCTCAAACCAGCCACAGATTACCATGCAAAAGTACAGGCAGAGTCCAATTCAATCAAGGGAATTCCTTCAGAAGCGGAAAGCTTTACGACCTTAAGCTGTGAGCCTGATCCCCCCAATGCACCAAGAATAGCCAACCGGACCAAAAATTCACTCACCTTGCAGTGGAAGGCACCTAGTGACAATGGTTCTAAAATCCAAAGTTTTATTTTAGAATGGGATGAAGGGAAAGGAAATGGAGAATTCTGTCAGTGTTACATGGGCTCACAGAAGCAATTTAAAATTACCAAACTCTCACCAGCAATGGGTTGTAAATTTAGATTATCAGCCAAAAATGACTATGGTGTAAGTGATTTTAGTGAAGAGGTCCTGTACTACACCTCAGGCTGTGCCCCTTCTGTCCCCGCAAGTCCTGTGTTGACCAAGGCTGGAGTTACTTGGCTGTCCCTACAGTGGACTAAGCCCTCAGGAACACCATCAGATGAAGGGATTTCTTACATTTTAGAGATGGAAGAGGAAACATCA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGCTGGAGTTACTTGGCTGT
59.96
TGAATGTCTGAGGCCACTGG
59.67
173
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAGCCCTCAGGAACACCATC
59.67
GGTGAGCAGGACAGTCCTTG
60.32
161
PCR template sequence:
GGCTGGAGTTACTTGGCTGTCCCTACAGTGGACTAAGCCCTCAGGAACACCATCAGATGAAGGGATTTCTTACATTTTAGAGATGGAAGAGGAAACATCAAAAAAGATGAAGAAACTAAAGCATTTGAAGCATTTCTTTCCAACATTGTCAAGCCAGTGGCCTCAGACATTCAGGCAAGGACTGTCCTGCTCACCTGGTC
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-26a-5p(1), mmu-miR-205-5p(1), mmu-miR-136-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-411-3p(1), mmu-miR-27a-5p(1), mmu-miR-673-5p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
AGAGGAAACATCAAAAAAGATGAAGA
siRNA sets
TCTTTTTTGATGTTTCCTC, ATCTTTTTTGATGTTTCCT, CTTTTTTGATGTTTCCTCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCFNDC3A_770_ORF_1
0.5689
-0.020772136
0.193598211
399
ORF sequence:
ATGGGCTCACAGAAGCAATTTAAAATTACCAAACTCTCACCAGCAATGGGTTGTAAATTTAGATTATCAGCCAAAAATGACTATGGTGTAAGTGATTTTAGTGAAGAGGTCCTGTACTACACCTCAGGCTGTGCCCCTTCTGTCCCCGCAAGTCCTGTGTTGACCAAGGCTGGAGTTACTTGGCTGTCCCTACAGTGGACTAAGCCCTCAGGAACACCATCAGATGAAGGGATTTCTTACATTTTAGAGATGGAAGAGGAAACATCAAAAAAGATGAAGAAACTAAAGCATTTGAAGCATTTCTTTCCAACATTGTCAAGCCAGTGGCCTCAGACATTCAGGCAAGGACTGTCCTGCTCACCTGGTCGCCACCATCCAGCTTCATTAACGGCGAAGTGA
Peptide sequence:
MGSQKQFKITKLSPAMGCKFRLSAKNDYGVSDFSEEVLYYTSGCAPSVPASPVLTKAGVTWLSLQWTKPSGTPSDEGISYILEMEEETSKKMKKLKHLKHFFPTLSSQWPQTFRQGLSCSPGRHHPASLTAK
IRESfinder result
IRESfinder score
0.693496064
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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