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mmu_circFarsb_1713
Basic information of circular RNA
PanCircBase ID:
mmu_circFarsb_1713
mm39_Chr. Position ID:
chr1|78401829|78459000|-
Gene name:
Farsb
Transcript:
ENSMUST00000170217.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
16
Exon/intron indexes:
17,16,15,14,13,12,11,10,9,8,7,6,5,4,3,2
Exon/intron offsets:
0,18442,29561,33372,37113,37642,38079,41774,42778,44059,45890,47291,50997,53000,54764,57115
Genomic length:
57171
Exon/intron sizes in nt:
153,156,118,93,81,208,62,52,62,71,109,151,116,70,155,56
Flanking exon/introns:
chr1:78394859-78401829|chr1:78459000-78465421
Splice length:
1713
Other database IDs:
CIRCpedia: MMU_CIRCpedia_224063, circAtlas: mmu-Farsb_0028
Human Ortholog IDs:
Mature spliced Sequence:
CTGATGAAGAGTTTGACGAACTGTGTTTTGAATTTGGTCTGGAACTTGATGAAATTACTTCTGAAAAGCAAATCATAAGCAAGGAACAAGGTCATGGGAAGGCACAGGGGGCCTCAGATGTTGTGCTTTACAAGATTGACGTCCCTGCCAACAGATACGACCTCCTGTGTCTGGAAGGACTGGCTCGGGGCCTCCAGGTCTTCAAAGAAAGGATCAAAGCTCCGGTATATAAGCGAGTGATGCCCAAGGGAGACATCCAAAAGCTGGTTATCACAGAAGAGACAGCCAAAGTGCGCCCTTTTGCTGTAGCAGCAGTTCTCCGGAATATCAAGTTCACTAAAGACCGATATGACAGCTTCATTGAACTTCAGGAGAAACTACACCAGAATATCTGCAGGAAAAGAGCGTTGGTTGCTATTGGAACTCACGACTTGGACACTTTATCAGGCCCATTTACTTACACCGCGAAACGTCCTTCAGATATCAAATTCAAGCCTCTGAATAAGACCAAGGAGTATACAGCTTGTGAATTAATGAACATATACAAGACTGACAACCACCTTAAACATTATTTACATATCATTGAAAGTAAGCCCCTGTATCCAGTTATCTATGACAGCAATGGTGTGGTCCTGTCGATGCCTCCGATTATAAATGGGAATCATTCAAAAATAACAGTAAATACTAGGAATATATTTATTGAATGCACAGGGACTGACTTCACTAAAGCAAAAATCGTGCTTGACATTATTGTCACCATGTTCAGTGAACACTGTGAAAATCAGTTTACAGTTGAAGCAGTTGAAGTAGTTTCTCCTAATGGAAAATCAAGTACCTTTCCAGAGCTGCCTTACAGAAAGGAGATGGTGAGAGCTGATTTAATTAACAAGAAAGTTGGAATCAGAGAAACTCCTGCAAATCTCGCCAAGCTCCTGACCAGGATGTGTCTGAAGTCAGAAGTCATAGGTGACGGCAATCAGATTGAGGTTGAAATTCCTCCGACCAGAGCAGATGTCATCCATGCATGTGACATTGTGGAGGACGCAGCTATTGCTTATGGCTATAACAACATTCAGATGACTCTGCCGAAAACGTACACCATAGCTAATCAATTTCCTCTCAACAAGCTCACCGAGCTCCTCAGACTTGACATGGCTGCGGCTGGCTTCACCGAAGCACTGACTTTTGCTCTGTGCTCCCAAGAAGATATTGCTGACAAGCTTGGCCTGGATATCTCTGCAACAAAGGCAGTGCACATAAGTAATCCTAAAACCGCTGAGTTCCAGGTGGCGCGCACTACCCTTCTTCCTGGCCTTCTAAAGACCATTGCAGCAAACCGGAAGATGCCCCTTCCTCTCAAACTGTTTGAAATCTCTGACGTTGTAGTAAAAGATTCTGGCAAAGATGTAGGTGCGAAAAACTACAGGCATCTCTGTGCTGTTTATTACAACAAGACTCCCGGGTTTGAGATCATCCATGGCTTGCTGGACAGAATTATGCAGCTGCTCGATGTGCCTCCTGGTGAGGAAAGCGGGGGCTACATGATCAAAGCGTCTGCAGGTTCTGCCTTTTTCCCTGGACGGTGTGCTGAGATCTTTGTTGGAGGTCAAAGCATTGGGAAGCTAGGCGTCCTTCATCCTGATGTTATCACCAAATTTGAGCTGACCATGCCCTGTTCCTCTCTGGAAATCAATATTGAGCCCTTTTTGTGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CATGCCCTGTTCCTCTCTGG
60.11
CCCATGACCTTGTTCCTTGC
59.11
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCATGCCCTGTTCCTCTCTG
60.11
CCCATGACCTTGTTCCTTGC
59.11
146
PCR template sequence:
ATTGGGAAGCTAGGCGTCCTTCATCCTGATGTTATCACCAAATTTGAGCTGACCATGCCCTGTTCCTCTCTGGAAATCAATATTGAGCCCTTTTTGTGAGCTGATGAAGAGTTTGACGAACTGTGTTTTGAATTTGGTCTGGAACTTGATGAAATTACTTCTGAAAAGCAAATCATAAGCAAGGAACAAGGTCATGGGAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-127-5p(1), mmu-miR-324-3p(1), mmu-miR-384-3p(1), mmu-miR-190b-5p(1), mmu-miR-3065-5p(1), mmu-miR-697(1), mmu-miR-544-5p(1), mmu-miR-146b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CCCTTTTTGTGAGCTGATGAAGAGTT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.590620693
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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