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mmu_circFchsd1_939
Basic information of circular RNA
PanCircBase ID:
mmu_circFchsd1_939
mm39_Chr. Position ID:
chr18|38095625|38097963|-
Gene name:
Fchsd1
Transcript:
ENSMUST00000043437.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
17,16,15,14,13,12,11
Exon/intron offsets:
0,347,555,720,1435,1741,2218
Genomic length:
2338
Exon/intron sizes in nt:
2,21,11,88,41,29,16,21,00,000
Flanking exon/introns:
chr18:38094387-38095625|chr18:38097963-38098703
Splice length:
939
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTATGTGGCCTGGAGTGGGGAGCAGGAGGCATGGCTGGAGAGAGTGGCCTGGAGAAAGAGGTTCAGCGCTGGACAAGCAGGGCTGCCCGGGACTACAAGATCCAGCATCACGGGCATCGGGTCCTGCAGCGACTGGAGCAGAGGCGTCAGCAGGCCCCGGGGCGAGAAGCTCCAGGCGTAGAACAGCGGCTACAGGAAGTGAGGGAGAACATCCGACGGGCACAGGTGAGCCAGGTGAAAGGGGCCGCCCGGCTGGCCCTGTTACAGGAGGCTGGTCTCGATGTACAGCGCTGGCTGAAGCCAGCCATGACCCAAGCCCAGGATGAGGTGGAACAGGAGCGGCGACTTAGTGAAGCTCGACTGTCCCAGAGGGACCTCTCTCCCACGGCTGAGGATGCTGAGCTTTCTGACTTCGATGAATGTGAGGAAGCTGGGGAGCTCTTTGAGGAGCCTGCCCCACCAGCCCTGGCTACCAGACCCCTCCCCTGCCCTGCACATGTAGTGTTCGGCTATCAGGCAGGACGTGAGGATGAGCTGACCATCACAGAGGGTGAGTGGCTGGAGGTCATAGAGGAAGGAGATGCTGACGAGTGGGTTAAGGCTCGGAACCAGCACGGTGAAGCGGGCTTTGTCCCTGAGCGATATCTCAACTTCCCGGATCTCTCCCTGCCTGAGAGCTGCCATGGCATCGACAATCCCTCAGGAGGAGAGCCCACAGCATTCTTGGCACGCGCTCTGTACAGCTACACGGGACAGAGTGAAGAGGAGCTAAGTTTCCCTGAAGGGGCACTCATCCGCCTGTTGCCCAGGGCTCAAGATGGAGTGGATGATGGCTTCTGGAGGGGAGAATTTGGGGGCCATGTTGGAGTCTTCCCATCTCTCCTGGTAGAGGAACTGCTTGGTCCCCCGGGGCCACCTGAGCTCTCTGACCCTGAACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCCATGTTGGAGTCTTCCCA
59.96
AGCGCTGAACCTCTTTCTCC
60.04
153
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AATTTGGGGGCCATGTTGGA
60.18
AGCGCTGAACCTCTTTCTCC
60.04
162
PCR template sequence:
GAGGGGAGAATTTGGGGGCCATGTTGGAGTCTTCCCATCTCTCCTGGTAGAGGAACTGCTTGGTCCCCCGGGGCCACCTGAGCTCTCTGACCCTGAACAGGTATGTGGCCTGGAGTGGGGAGCAGGAGGCATGGCTGGAGAGAGTGGCCTGGAGAAAGAGGTTCAGCGCTGGACAAGCAGGGCTGCCCGGGACTACAAGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-7b-5p(1), mmu-miR-181a-5p(1), mmu-miR-185-5p(1), mmu-miR-181b-5p(1), mmu-miR-149-5p(1), mmu-miR-676-3p(1), mmu-miR-541-5p(1), mmu-miR-705(1), mmu-miR-207(1), mmu-miR-296-3p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TGACCCTGAACAGGTATGTGGCCTGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCFCHSD1_939_ORF_1
1.2248
0.423418364
0.9999942
1848
ORF sequence:
ATGGCTGGAGAGAGTGGCCTGGAGAAAGAGGTTCAGCGCTGGACAAGCAGGGCTGCCCGGGACTACAAGATCCAGCATCACGGGCATCGGGTCCTGCAGCGACTGGAGCAGAGGCGTCAGCAGGCCCCGGGGCGAGAAGCTCCAGGCGTAGAACAGCGGCTACAGGAAGTGAGGGAGAACATCCGACGGGCACAGGTGAGCCAGGTGAAAGGGGCCGCCCGGCTGGCCCTGTTACAGGAGGCTGGTCTCGATGTACAGCGCTGGCTGAAGCCAGCCATGACCCAAGCCCAGGATGAGGTGGAACAGGAGCGGCGACTTAGTGAAGCTCGACTGTCCCAGAGGGACCTCTCTCCCACGGCTGAGGATGCTGAGCTTTCTGACTTCGATGAATGTGAGGAAGCTGGGGAGCTCTTTGAGGAGCCTGCCCCACCAGCCCTGGCTACCAGACCCCTCCCCTGCCCTGCACATGTAGTGTTCGGCTATCAGGCAGGACGTGAGGATGAGCTGACCATCACAGAGGGTGAGTGGCTGGAGGTCATAGAGGAAGGAGATGCTGACGAGTGGGTTAAGGCTCGGAACCAGCACGGTGAAGCGGGCTTTGTCCCTGAGCGATATCTCAACTTCCCGGATCTCTCCCTGCCTGAGAGCTGCCATGGCATCGACAATCCCTCAGGAGGAGAGCCCACAGCATTCTTGGCACGCGCTCTGTACAGCTACACGGGACAGAGTGAAGAGGAGCTAAGTTTCCCTGAAGGGGCACTCATCCGCCTGTTGCCCAGGGCTCAAGATGGAGTGGATGATGGCTTCTGGAGGGGAGAATTTGGGGGCCATGTTGGAGTCTTCCCATCTCTCCTGGTAGAGGAACTGCTTGGTCCCCCGGGGCCACCTGAGCTCTCTGACCCTGAACAGGTATGTGGCCTGGAGTGGGGAGCAGGAGGCATGGCTGGAGAGAGTGGCCTGGAGAAAGAGGTTCAGCGCTGGACAAGCAGGGCTGCCCGGGACTACAAGATCCAGCATCACGGGCATCGGGTCCTGCAGCGACTGGAGCAGAGGCGTCAGCAGGCCCCGGGGCGAGAAGCTCCAGGCGTAGAACAGCGGCTACAGGAAGTGAGGGAGAACATCCGACGGGCACAGGTGAGCCAGGTGAAAGGGGCCGCCCGGCTGGCCCTGTTACAGGAGGCTGGTCTCGATGTACAGCGCTGGCTGAAGCCAGCCATGACCCAAGCCCAGGATGAGGTGGAACAGGAGCGGCGACTTAGTGAAGCTCGACTGTCCCAGAGGGACCTCTCTCCCACGGCTGAGGATGCTGAGCTTTCTGACTTCGATGAATGTGAGGAAGCTGGGGAGCTCTTTGAGGAGCCTGCCCCACCAGCCCTGGCTACCAGACCCCTCCCCTGCCCTGCACATGTAGTGTTCGGCTATCAGGCAGGACGTGAGGATGAGCTGACCATCACAGAGGGTGAGTGGCTGGAGGTCATAGAGGAAGGAGATGCTGACGAGTGGGTTAAGGCTCGGAACCAGCACGGTGAAGCGGGCTTTGTCCCTGAGCGATATCTCAACTTCCCGGATCTCTCCCTGCCTGAGAGCTGCCATGGCATCGACAATCCCTCAGGAGGAGAGCCCACAGCATTCTTGGCACGCGCTCTGTACAGCTACACGGGACAGAGTGAAGAGGAGCTAAGTTTCCCTGAAGGGGCACTCATCCGCCTGTTGCCCAGGGCTCAAGATGGAGTGGATGATGGCTTCTGGAGGGGAGAATTTGGGGGCCATGTTGGAGTCTTCCCATCTCTCCTGGTAGAGGAACTGCTTGGTCCCCCGGGGCCACCTGAGCTCTCTGACCCTGAACAG
Peptide sequence:
MAGESGLEKEVQRWTSRAARDYKIQHHGHRVLQRLEQRRQQAPGREAPGVEQRLQEVRENIRRAQVSQVKGAARLALLQEAGLDVQRWLKPAMTQAQDEVEQERRLSEARLSQRDLSPTAEDAELSDFDECEEAGELFEEPAPPALATRPLPCPAHVVFGYQAGREDELTITEGEWLEVIEEGDADEWVKARNQHGEAGFVPERYLNFPDLSLPESCHGIDNPSGGEPTAFLARALYSYTGQSEEELSFPEGALIRLLPRAQDGVDDGFWRGEFGGHVGVFPSLLVEELLGPPGPPELSDPEQVCGLEWGAGGMAGESGLEKEVQRWTSRAARDYKIQHHGHRVLQRLEQRRQQAPGREAPGVEQRLQEVRENIRRAQVSQVKGAARLALLQEAGLDVQRWLKPAMTQAQDEVEQERRLSEARLSQRDLSPTAEDAELSDFDECEEAGELFEEPAPPALATRPLPCPAHVVFGYQAGREDELTITEGEWLEVIEEGDADEWVKARNQHGEAGFVPERYLNFPDLSLPESCHGIDNPSGGEPTAFLARALYSYTGQSEEELSFPEGALIRLLPRAQDGVDDGFWRGEFGGHVGVFPSLLVEELLGPPGPPELSDPEQ
IRESfinder result
IRESfinder score
0.299223402
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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