top of page
mmu_circAnapc4_641
Basic information of circular RNA
PanCircBase ID:
mmu_circAnapc4_641
mm39_Chr. Position ID:
chr5|52996963|53004060|+
Gene name:
Anapc4
Transcript:
ENSMUST00000031072.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
3,4,5,6,7,8,9,10
Exon/intron offsets:
0,2094,2283,2402,3199,3865,5702,7010
Genomic length:
7097
Exon/intron sizes in nt:
133,75,27,45,85,105,84,87
Flanking exon/introns:
chr5:52993125-52996963|chr5:53004060-53005332
Splice length:
641
Other database IDs:
circAtlas: mmu-Apc4_0005
circAtlas: hsa-APC4_0007, CIRCpedia: HSA_CIRCpedia_356015
Human Ortholog IDs:
Mature spliced Sequence:
TTTTGGCCTTTGCTCTTGCGGATACCAAGAAAATTATTTTGTGTGATGTAGAAAAGCCTGAAAGCTTACACTCCTTCTCTGTGGAGGCTCCGGTCTCTTGTATGCATTGGACAGAAGTGACTGTGGAAAGCAGTGTTTTAACATCGTTTTATAATGCTGAGGATGAGTCCAATCTTCTCTTGCCTAAGCTGCCCACATTGCCAAAAAATTACAACAGCACCTCAAAAATATTTAGTGAAGAAAATTCTGATGAAATTATCAAGCTCTTGGGAGATGTCAGGCTGAACATCCTTGTCCTTGGAGGAAGCTCTGGATTTATTGAGCTTTATGCTTATGGGATGTTCAAAATTGCCCGAGTAACAGGGATTGCCGGAACTTGTATTGCTCTGTGTTTATCAAGTGATTTGAAGTCATTATCAGTGGTCACAGAGGTTTCCAGCGGTGGCGAATCAGAAGTTTCATATTTTCAGCTTGAAACCAATCTGCTGTATTCCTTCTTACCTGAAGTAACTCGTATGGCCAGGAAGTTTACTCACATTTCAGCTCTCTTACAGTATATAAATTTGTCACTGACATGTATGTGTGAAGCATGGGAAGAAATTCTGATGCAGATGGACTCCCGTCTTACCAAGTTTGTACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCTGATGCAGATGGACTCCC
58.87
CAAGAGACCGGAGCCTCCA
60.98
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGTGAAGCATGGGAAGAA
57.34
GGAGCCTCCACAGAGAAGGA
60.62
153
PCR template sequence:
AGCTCTCTTACAGTATATAAATTTGTCACTGACATGTATGTGTGAAGCATGGGAAGAAATTCTGATGCAGATGGACTCCCGTCTTACCAAGTTTGTACAGTTTTGGCCTTTGCTCTTGCGGATACCAAGAAAATTATTTTGTGTGATGTAGAAAAGCCTGAAAGCTTACACTCCTTCTCTGTGGAGGCTCCGGTCTCTTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-141-3p(1), mmu-miR-34c-5p(1), mmu-miR-335-5p(1), mmu-miR-381-3p(1), mmu-miR-483-5p(1), mmu-miR-182-5p(1), mmu-miR-342-5p(1), mmu-miR-377-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CAAGTTTGTACAGTTTTGGCCTTTGC
siRNA sets
AAAGGCCAAAACTGTACAA,CAAAGGCCAAAACTGTACA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCANAPC4_641_ORF_1
0.804
-0.003722865
0.769902645
693
ORF sequence:
ATGGGAAGAAATTCTGATGCAGATGGACTCCCGTCTTACCAAGTTTGTACAGTTTTGGCCTTTGCTCTTGCGGATACCAAGAAAATTATTTTGTGTGATGTAGAAAAGCCTGAAAGCTTACACTCCTTCTCTGTGGAGGCTCCGGTCTCTTGTATGCATTGGACAGAAGTGACTGTGGAAAGCAGTGTTTTAACATCGTTTTATAATGCTGAGGATGAGTCCAATCTTCTCTTGCCTAAGCTGCCCACATTGCCAAAAAATTACAACAGCACCTCAAAAATATTTAGTGAAGAAAATTCTGATGAAATTATCAAGCTCTTGGGAGATGTCAGGCTGAACATCCTTGTCCTTGGAGGAAGCTCTGGATTTATTGAGCTTTATGCTTATGGGATGTTCAAAATTGCCCGAGTAACAGGGATTGCCGGAACTTGTATTGCTCTGTGTTTATCAAGTGATTTGAAGTCATTATCAGTGGTCACAGAGGTTTCCAGCGGTGGCGAATCAGAAGTTTCATATTTTCAGCTTGAAACCAATCTGCTGTATTCCTTCTTACCTGAAGTAACTCGTATGGCCAGGAAGTTTACTCACATTTCAGCTCTCTTACAGTATATAAATTTGTCACTGACATGTATGTGTGAAGCATGGGAAGAAATTCTGATGCAGATGGACTCCCGTCTTACCAAGTTTGTACAG
Peptide sequence:
MGRNSDADGLPSYQVCTVLAFALADTKKIILCDVEKPESLHSFSVEAPVSCMHWTEVTVESSVLTSFYNAEDESNLLLPKLPTLPKNYNSTSKIFSEENSDEIIKLLGDVRLNILVLGGSSGFIELYAYGMFKIARVTGIAGTCIALCLSSDLKSLSVVTEVSSGGESEVSYFQLETNLLYSFLPEVTRMARKFTHISALLQYINLSLTCMCEAWEEILMQMDSRLTKFVQ
IRESfinder result
IRESfinder score
0.787057372
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page