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mmu_circFarsb_1123
Basic information of circular RNA
PanCircBase ID:
mmu_circFarsb_1123
mm39_Chr. Position ID:
chr1|78431390|78452942|-
Gene name:
Farsb
Transcript:
ENSMUST00000170217.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
11
Exon/intron indexes:
15,14,13,12,11,10,9,8,7,6,5
Exon/intron offsets:
0,3811,7552,8081,8518,12213,13217,14498,16329,17730,21436
Genomic length:
21552
Exon/intron sizes in nt:
11,89,38,12,08,62,52,60,00,00,00,00,000
Flanking exon/introns:
chr1:78420427-78431390|chr1:78452942-78454829
Splice length:
1123
Other database IDs:
CIRCpedia: MMU_CIRCpedia_29900, circAtlas: mmu-Farsb_0018
Human Ortholog IDs:
Mature spliced Sequence:
ACAGCCAAAGTGCGCCCTTTTGCTGTAGCAGCAGTTCTCCGGAATATCAAGTTCACTAAAGACCGATATGACAGCTTCATTGAACTTCAGGAGAAACTACACCAGAATATCTGCAGGAAAAGAGCGTTGGTTGCTATTGGAACTCACGACTTGGACACTTTATCAGGCCCATTTACTTACACCGCGAAACGTCCTTCAGATATCAAATTCAAGCCTCTGAATAAGACCAAGGAGTATACAGCTTGTGAATTAATGAACATATACAAGACTGACAACCACCTTAAACATTATTTACATATCATTGAAAGTAAGCCCCTGTATCCAGTTATCTATGACAGCAATGGTGTGGTCCTGTCGATGCCTCCGATTATAAATGGGAATCATTCAAAAATAACAGTAAATACTAGGAATATATTTATTGAATGCACAGGGACTGACTTCACTAAAGCAAAAATCGTGCTTGACATTATTGTCACCATGTTCAGTGAACACTGTGAAAATCAGTTTACAGTTGAAGCAGTTGAAGTAGTTTCTCCTAATGGAAAATCAAGTACCTTTCCAGAGCTGCCTTACAGAAAGGAGATGGTGAGAGCTGATTTAATTAACAAGAAAGTTGGAATCAGAGAAACTCCTGCAAATCTCGCCAAGCTCCTGACCAGGATGTGTCTGAAGTCAGAAGTCATAGGTGACGGCAATCAGATTGAGGTTGAAATTCCTCCGACCAGAGCAGATGTCATCCATGCATGTGACATTGTGGAGGACGCAGCTATTGCTTATGGCTATAACAACATTCAGATGACTCTGCCGAAAACGTACACCATAGCTAATCAATTTCCTCTCAACAAGCTCACCGAGCTCCTCAGACTTGACATGGCTGCGGCTGGCTTCACCGAAGCACTGACTTTTGCTCTGTGCTCCCAAGAAGATATTGCTGACAAGCTTGGCCTGGATATCTCTGCAACAAAGGCAGTGCACATAAGTAATCCTAAAACCGCTGAGTTCCAGGTGGCGCGCACTACCCTTCTTCCTGGCCTTCTAAAGACCATTGCAGCAAACCGGAAGATGCCCCTTCCTCTCAAACTGTTTGAAATCTCTGACGTTGTAGTAAAAGATTCTGGCAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCCTGGCCTTCTAAAGACCA
57.96
TTCCGGAGAACTGCTGCTAC
59.75
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCCTGGCCTTCTAAAGACCA
57.96
CCGGAGAACTGCTGCTACAG
60.46
140
PCR template sequence:
CTTCCTGGCCTTCTAAAGACCATTGCAGCAAACCGGAAGATGCCCCTTCCTCTCAAACTGTTTGAAATCTCTGACGTTGTAGTAAAAGATTCTGGCAAAGACAGCCAAAGTGCGCCCTTTTGCTGTAGCAGCAGTTCTCCGGAATATCAAGTTCACTAAAGACCGATATGACAGCTTCATTGAACTTCAGGAGAAACTAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-127-5p(1), mmu-miR-324-3p(1), mmu-miR-384-3p(1), mmu-miR-190b-5p(1), mmu-miR-697(1), mmu-miR-544-5p(1), mmu-miR-146b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GATTCTGGCAAAGACAGCCAAAGTGC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCFARSB_1123_ORF_1
1.1388
0.139938573
0.983785601
930
ORF sequence:
ATGAACATATACAAGACTGACAACCACCTTAAACATTATTTACATATCATTGAAAGTAAGCCCCTGTATCCAGTTATCTATGACAGCAATGGTGTGGTCCTGTCGATGCCTCCGATTATAAATGGGAATCATTCAAAAATAACAGTAAATACTAGGAATATATTTATTGAATGCACAGGGACTGACTTCACTAAAGCAAAAATCGTGCTTGACATTATTGTCACCATGTTCAGTGAACACTGTGAAAATCAGTTTACAGTTGAAGCAGTTGAAGTAGTTTCTCCTAATGGAAAATCAAGTACCTTTCCAGAGCTGCCTTACAGAAAGGAGATGGTGAGAGCTGATTTAATTAACAAGAAAGTTGGAATCAGAGAAACTCCTGCAAATCTCGCCAAGCTCCTGACCAGGATGTGTCTGAAGTCAGAAGTCATAGGTGACGGCAATCAGATTGAGGTTGAAATTCCTCCGACCAGAGCAGATGTCATCCATGCATGTGACATTGTGGAGGACGCAGCTATTGCTTATGGCTATAACAACATTCAGATGACTCTGCCGAAAACGTACACCATAGCTAATCAATTTCCTCTCAACAAGCTCACCGAGCTCCTCAGACTTGACATGGCTGCGGCTGGCTTCACCGAAGCACTGACTTTTGCTCTGTGCTCCCAAGAAGATATTGCTGACAAGCTTGGCCTGGATATCTCTGCAACAAAGGCAGTGCACATAAGTAATCCTAAAACCGCTGAGTTCCAGGTGGCGCGCACTACCCTTCTTCCTGGCCTTCTAAAGACCATTGCAGCAAACCGGAAGATGCCCCTTCCTCTCAAACTGTTTGAAATCTCTGACGTTGTAGTAAAAGATTCTGGCAAAGACAGCCAAAGTGCGCCCTTTTGCTGTAGCAGCAGTTCTCCGGAATATCAAGTTCACTAA
Peptide sequence:
MNIYKTDNHLKHYLHIIESKPLYPVIYDSNGVVLSMPPIINGNHSKITVNTRNIFIECTGTDFTKAKIVLDIIVTMFSEHCENQFTVEAVEVVSPNGKSSTFPELPYRKEMVRADLINKKVGIRETPANLAKLLTRMCLKSEVIGDGNQIEVEIPPTRADVIHACDIVEDAAIAYGYNNIQMTLPKTYTIANQFPLNKLTELLRLDMAAAGFTEALTFALCSQEDIADKLGLDISATKAVHISNPKTAEFQVARTTLLPGLLKTIAANRKMPLPLKLFEISDVVVKDSGKDSQSAPFCCSSSSPEYQVH
IRESfinder result
IRESfinder score
0.621789801
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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