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mmu_circArhgap44_662
Basic information of circular RNA
PanCircBase ID:
mmu_circArhgap44_662
mm39_Chr. Position ID:
chr11|64912766|64923021|-
Gene name:
Arhgap44
Transcript:
ENSMUST00000047463.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
16,15,14,13,12,11
Exon/intron offsets:
0,1185,2250,4863,9710,10143
Genomic length:
10255
Exon/intron sizes in nt:
181,92,114,81,82,112
Flanking exon/introns:
chr11:64902924-64912766|chr11:64923021-64929441
Splice length:
662
Other database IDs:
CIRCpedia: MMU_CIRCpedia_25999, circAtlas: mmu-Arhgap44_0008
Human Ortholog IDs:
Mature spliced Sequence:
GGCCTCTTCCGGGTAGCCCCCTCAGCCTCCAAGCTGAAGAAGCTGAAAGCTGCTCTGGACTGCTGTGTGGTGGATGTCCAGGAGTACTCGGCTGACCCCCACGCCATAGCAGGGGCTTTGAAGTCTTATCTCCGAGAGTTGCCAGAGCCTCTTATGACCTTTGAACTCTATGACGAATGGATCCAGGCTTCTAATATCCAGGAGCAAGACAAGAGACTTCAGGCTCTCTGGAATGCTTGTGAGAAGTTGCCCAAGGCCAACCATAACAACATCAAATACTTGATCAAATTTTTATCGAAACTGTCTGAATATCAGGATGTAAACAAGATGACTCCCAGTAACATGGCAATTGTCCTGGGACCCAATCTCCTTTGGCCACAGTCAGAGGGGAACATCACCGAGATGATGACCACAGTTTCCCTGCAGATCGTTGGCATCATCGAGCCCATTATCCAGCACGCAGACTGGTTCTTCCCTGGAGAGATAGAGTTCAACCTCACAGGCAGTTACGGGAGTCCAGTCCACGTGAACCACAATGCCAACTACAGCTCAATGCCCTCCCCAGACATGGACCCTGCTGACCGGCGCCAGCCAGAGCAGGCCCGCCGGCCCCTCAGTGTTGCCACAGACAACATGATGCTGGAGTTTTACAAGAAGGATGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCTCAGTGTTGCCACAGACA
60.18
AGCCGAGTACTCCTGGACAT
60.03
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCTCAGTGTTGCCACAGACA
60.18
GCCGAGTACTCCTGGACATC
59.61
143
PCR template sequence:
CAGACATGGACCCTGCTGACCGGCGCCAGCCAGAGCAGGCCCGCCGGCCCCTCAGTGTTGCCACAGACAACATGATGCTGGAGTTTTACAAGAAGGATGGGGCCTCTTCCGGGTAGCCCCCTCAGCCTCCAAGCTGAAGAAGCTGAAAGCTGCTCTGGACTGCTGTGTGGTGGATGTCCAGGAGTACTCGGCTGACCCCC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-26b-5p(1), mmu-miR-697(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ACAAGAAGGATGGGGCCTCTTCCGGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARHGAP44_662_ORF_1
1.2221
0.374009435
0.910222393
525
ORF sequence:
ATGACCTTTGAACTCTATGACGAATGGATCCAGGCTTCTAATATCCAGGAGCAAGACAAGAGACTTCAGGCTCTCTGGAATGCTTGTGAGAAGTTGCCCAAGGCCAACCATAACAACATCAAATACTTGATCAAATTTTTATCGAAACTGTCTGAATATCAGGATGTAAACAAGATGACTCCCAGTAACATGGCAATTGTCCTGGGACCCAATCTCCTTTGGCCACAGTCAGAGGGGAACATCACCGAGATGATGACCACAGTTTCCCTGCAGATCGTTGGCATCATCGAGCCCATTATCCAGCACGCAGACTGGTTCTTCCCTGGAGAGATAGAGTTCAACCTCACAGGCAGTTACGGGAGTCCAGTCCACGTGAACCACAATGCCAACTACAGCTCAATGCCCTCCCCAGACATGGACCCTGCTGACCGGCGCCAGCCAGAGCAGGCCCGCCGGCCCCTCAGTGTTGCCACAGACAACATGATGCTGGAGTTTTACAAGAAGGATGGGGCCTCTTCCGGGTAG
Peptide sequence:
MTFELYDEWIQASNIQEQDKRLQALWNACEKLPKANHNNIKYLIKFLSKLSEYQDVNKMTPSNMAIVLGPNLLWPQSEGNITEMMTTVSLQIVGIIEPIIQHADWFFPGEIEFNLTGSYGSPVHVNHNANYSSMPSPDMDPADRRQPEQARRPLSVATDNMMLEFYKKDGASSG
IRESfinder result
IRESfinder score
0.339623779
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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