top of page
mmu_circAqr_580
Basic information of circular RNA
PanCircBase ID:
mmu_circAqr_580
mm39_Chr. Position ID:
chr2|113976108|113985522|-
Gene name:
Aqr
Transcript:
ENSMUST00000043160.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
14,13,12,11,10,9
Exon/intron offsets:
0,1261,3311,4771,5891,9337
Genomic length:
9414
Exon/intron sizes in nt:
103,104,114,117,65,77
Flanking exon/introns:
chr2:113973589-113976108|chr2:113985522-113986727
Splice length:
580
Other database IDs:
circBase: hsa_circ_0103351, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_14005
Human Ortholog IDs:
Mature spliced Sequence:
GGCCTACCAAGAAAGAAGGTTTCTCTCCCGGCTCATCCAGAAGTTCATCTCCGTGTTGAAGTCCATCCCGCTTTCTGAGCCTGTCACCATGGACAAGGTTCATTACTGTGAAAGATTCATCGAACTGATGATTGATCTAGAGGCTCTACTCCCCACGAGGCGCTGGTTTAACACCATCCTGGATGACTCCCACCTTCTGGTTCACTGCTACCTCTCCAGTCTTGTTCACAGAGAAGAGGACGGCCATCTGTTTTCCCAGCTTTTAGACATGCTGAAGTTCTATACTGGCTTTGAGATTAACGACCAGACTGGAAATGCTCTGACAGAGAACGAGATGACCACGATTCACTATGACAGAATTACATCTCTGCAGAGGGCTGCCTTCGCACACTTCCCCGAGCTCTATGACTTTGCCCTCTCCAATGTGGCAGAAGTAGATGCCCGAGATTCCTTGGTCAAGTTTTTTGGGCCTCTCAGTTCAAACACACTCCACCAGGTGGCATCATACCTCTGCCTCTTGCCAACGCTCCCTAAAAATGAAGACACAACTTTTGATAAAGAGTTTCTTCTAGAATTGCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTCTTGCCAACGCTCCCTAA
60.04
TGGTGACAGGCTCAGAAAGC
60.25
155
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TACCTCTGCCTCTTGCCAAC
59.68
TGGTGACAGGCTCAGAAAGC
60.25
164
PCR template sequence:
AAACACACTCCACCAGGTGGCATCATACCTCTGCCTCTTGCCAACGCTCCCTAAAAATGAAGACACAACTTTTGATAAAGAGTTTCTTCTAGAATTGCTGGGCCTACCAAGAAAGAAGGTTTCTCTCCCGGCTCATCCAGAAGTTCATCTCCGTGTTGAAGTCCATCCCGCTTTCTGAGCCTGTCACCATGGACAAGGTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
16
Interacting miRNAs (#binding sites)
mmu-let-7a-5p(1), mmu-let-7b-5p(1), mmu-miR-31-5p(1), mmu-let-7c-5p(1), mmu-miR-298-5p(1), mmu-miR-709(1), mmu-miR-320-3p(1), mmu-miR-143-3p(1), mmu-miR-185-5p(1), mmu-let-7d-5p(1), mmu-miR-24-3p(1), mmu-miR-182-5p(1), mmu-miR-680(1), mmu-miR-484(1), mmu-miR-1904(1), mmu-miR-574-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TCTAGAATTGCTGGGCCTACCAAGAA
siRNA sets
TTCTTGGTAGGCCCAGCAA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAQR_580_ORF_1
1.1323
0.187488423
0.847525434
570
ORF sequence:
ATGGACAAGGTTCATTACTGTGAAAGATTCATCGAACTGATGATTGATCTAGAGGCTCTACTCCCCACGAGGCGCTGGTTTAACACCATCCTGGATGACTCCCACCTTCTGGTTCACTGCTACCTCTCCAGTCTTGTTCACAGAGAAGAGGACGGCCATCTGTTTTCCCAGCTTTTAGACATGCTGAAGTTCTATACTGGCTTTGAGATTAACGACCAGACTGGAAATGCTCTGACAGAGAACGAGATGACCACGATTCACTATGACAGAATTACATCTCTGCAGAGGGCTGCCTTCGCACACTTCCCCGAGCTCTATGACTTTGCCCTCTCCAATGTGGCAGAAGTAGATGCCCGAGATTCCTTGGTCAAGTTTTTTGGGCCTCTCAGTTCAAACACACTCCACCAGGTGGCATCATACCTCTGCCTCTTGCCAACGCTCCCTAAAAATGAAGACACAACTTTTGATAAAGAGTTTCTTCTAGAATTGCTGGGCCTACCAAGAAAGAAGGTTTCTCTCCCGGCTCATCCAGAAGTTCATCTCCGTGTTGAAGTCCATCCCGCTTTCTGA
Peptide sequence:
MDKVHYCERFIELMIDLEALLPTRRWFNTILDDSHLLVHCYLSSLVHREEDGHLFSQLLDMLKFYTGFEINDQTGNALTENEMTTIHYDRITSLQRAAFAHFPELYDFALSNVAEVDARDSLVKFFGPLSSNTLHQVASYLCLLPTLPKNEDTTFDKEFLLELLGLPRKKVSLPAHPEVHLRVEVHPAF
IRESfinder result
IRESfinder score
0.70752959
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page