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mmu_circ2700049A03Rik_1194
Basic information of circular RNA
PanCircBase ID:
mmu_circ2700049A03Rik_1194
mm39_Chr. Position ID:
chr12|71231196|71241240|+
Gene name:
2700049A03Rik
Transcript:
ENSMUST00000149564.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
21,22,23,24,25,26,27
Exon/intron offsets:
0,2958,4165,4984,6472,8844,9869
Genomic length:
10044
Exon/intron sizes in nt:
200,157,220,248,71,123,175
Flanking exon/introns:
chr12:71225932-71231196|chr12:71241240-71262815
Splice length:
1194
Other database IDs:
circBase: mmu_circ_0004160, CIRCpedia: MMU_CIRCpedia_27725, circAtlas: mmu-2700049A03Rik_0008
circAtlas: hsa-KIAA0586_0025, CIRCpedia: HSA_CIRCpedia_12532
Human Ortholog IDs:
Mature spliced Sequence:
TTGCAGGAACAAGCAGTGGAGCGCTCCAGCGTATGGTTGATGCCAGAGTTCCTGTGAACTCGGACATGGTCAGCCATTTTGTCAATGAAGCTCTGACTGAGACCATTGCTGTCATGTTAGCTGACAGAGAAGCAGAGAGGCAAAGGGCTGCTGCCACAAGTGTTCCTGGTGATCTTTCAGGAACTGAAACTAACCTGTTGGCAAGAGTTTGTGCTCCAGTAGCGACGCCGCAGCCCACTCCCCCCTGCTCACCATCACCTGTGAGGGAGCACGTGCGAGTGAAAACGCCAGACTCTTCTCCCTGTGAATCCGATCCAGATGCGGCTTCTTCTATAAAAGAGATACGCGTTGAAAAAGGAAGTGATATGCCTGCTGTCATGCTTGTTAGTACACCAACACGCACTCCTGTCGCTACCCCTCCTCCAGCAGCAGCTCTTACCCCAACTTTGTCCGAAACTTCCATTGACAAGTTGAAGTTATCAAGCCCTGAACTTCCCAAGCCATGGGACAGTGGAGACCTGCCACTGGATGAAGAGAATCCTAACTCTCTTCAAGAGCTTCCTCACCCAAGAGCGGTTGTAATGTCTGTGGCTAATGAAGAACCTGAGAGTGTGGACTTTTCTGCTCAGCCTGCACCTCCGGAGCCAGCTCCCTCAGCACCACTTCCTGAGGGCACCAAGGCCCCTTCCCTCCAGCGAGTACCAAGTTCAGGTTCATCCACCCTGGAGAACACTCTGAGCACTGTCACTGAAACAGAAACGCTAGACAGGCATATATCTGAAGGGGAGATCTTATTTAGCTGTGGTCAAAACTTGGCTACCAAGAGACCTGGGGACTTGTTTCTGATGAACATAAATGACAGCTTATCCAGCACTCTGCAGGATGCCCTTGAAATGGAAGATGACCCTCCCAGTGAAGGGCAGGTGATTAGGAGGCCCCACAAAAAGCGTCATGAAGATGCCATCGTTGCCCTTCTTACTAAGCAACAACGGGAGTTATTAGTTTCACAGCAAGAGGAGGACTTGGATAACAGCGTGGGTGAGCTTAGTGAAGGACAGAGGCTCGTGCTGAAAGCAGCAGAGGACATCTCAGCAGGACCGTCCGGCCAAATGCTGCCGCCCACTTCTCCTGCAGAGCCCTCCTATCAGCACGCAGACCCTCGGCTGGTATTGCAGCAGTCTGACATGGCCTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCCTGCAGAGCCCTCCTATC
60.47
GCTGACCATGTCCGAGTTCA
60.04
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTCCTGCAGAGCCCTCCTAT
60.47
GCTGACCATGTCCGAGTTCA
60.04
143
PCR template sequence:
GGACCGTCCGGCCAAATGCTGCCGCCCACTTCTCCTGCAGAGCCCTCCTATCAGCACGCAGACCCTCGGCTGGTATTGCAGCAGTCTGACATGGCCTCAGTTGCAGGAACAAGCAGTGGAGCGCTCCAGCGTATGGTTGATGCCAGAGTTCCTGTGAACTCGGACATGGTCAGCCATTTTGTCAATGAAGCTCTGACTGA
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-103-3p(1), mmu-miR-214-3p(1), mmu-miR-149-5p(1), mmu-miR-370-3p(1), mmu-miR-107-3p(1), mmu-miR-680(1), mmu-miR-7a-2-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GACATGGCCTCAGTTGCAGGAACAAG
siRNA sets
TTGTTCCTGCAACTGAGGC, CTTGTTCCTGCAACTGAGG, TGTTCCTGCAACTGAGGCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRC2700049A03RIK_1194_ORF_1
1.1298
0.169581215
0.999999491
2355
ORF sequence:
ATGGTTGATGCCAGAGTTCCTGTGAACTCGGACATGGTCAGCCATTTTGTCAATGAAGCTCTGACTGAGACCATTGCTGTCATGTTAGCTGACAGAGAAGCAGAGAGGCAAAGGGCTGCTGCCACAAGTGTTCCTGGTGATCTTTCAGGAACTGAAACTAACCTGTTGGCAAGAGTTTGTGCTCCAGTAGCGACGCCGCAGCCCACTCCCCCCTGCTCACCATCACCTGTGAGGGAGCACGTGCGAGTGAAAACGCCAGACTCTTCTCCCTGTGAATCCGATCCAGATGCGGCTTCTTCTATAAAAGAGATACGCGTTGAAAAAGGAAGTGATATGCCTGCTGTCATGCTTGTTAGTACACCAACACGCACTCCTGTCGCTACCCCTCCTCCAGCAGCAGCTCTTACCCCAACTTTGTCCGAAACTTCCATTGACAAGTTGAAGTTATCAAGCCCTGAACTTCCCAAGCCATGGGACAGTGGAGACCTGCCACTGGATGAAGAGAATCCTAACTCTCTTCAAGAGCTTCCTCACCCAAGAGCGGTTGTAATGTCTGTGGCTAATGAAGAACCTGAGAGTGTGGACTTTTCTGCTCAGCCTGCACCTCCGGAGCCAGCTCCCTCAGCACCACTTCCTGAGGGCACCAAGGCCCCTTCCCTCCAGCGAGTACCAAGTTCAGGTTCATCCACCCTGGAGAACACTCTGAGCACTGTCACTGAAACAGAAACGCTAGACAGGCATATATCTGAAGGGGAGATCTTATTTAGCTGTGGTCAAAACTTGGCTACCAAGAGACCTGGGGACTTGTTTCTGATGAACATAAATGACAGCTTATCCAGCACTCTGCAGGATGCCCTTGAAATGGAAGATGACCCTCCCAGTGAAGGGCAGGTGATTAGGAGGCCCCACAAAAAGCGTCATGAAGATGCCATCGTTGCCCTTCTTACTAAGCAACAACGGGAGTTATTAGTTTCACAGCAAGAGGAGGACTTGGATAACAGCGTGGGTGAGCTTAGTGAAGGACAGAGGCTCGTGCTGAAAGCAGCAGAGGACATCTCAGCAGGACCGTCCGGCCAAATGCTGCCGCCCACTTCTCCTGCAGAGCCCTCCTATCAGCACGCAGACCCTCGGCTGGTATTGCAGCAGTCTGACATGGCCTCAGTTGCAGGAACAAGCAGTGGAGCGCTCCAGCGTATGGTTGATGCCAGAGTTCCTGTGAACTCGGACATGGTCAGCCATTTTGTCAATGAAGCTCTGACTGAGACCATTGCTGTCATGTTAGCTGACAGAGAAGCAGAGAGGCAAAGGGCTGCTGCCACAAGTGTTCCTGGTGATCTTTCAGGAACTGAAACTAACCTGTTGGCAAGAGTTTGTGCTCCAGTAGCGACGCCGCAGCCCACTCCCCCCTGCTCACCATCACCTGTGAGGGAGCACGTGCGAGTGAAAACGCCAGACTCTTCTCCCTGTGAATCCGATCCAGATGCGGCTTCTTCTATAAAAGAGATACGCGTTGAAAAAGGAAGTGATATGCCTGCTGTCATGCTTGTTAGTACACCAACACGCACTCCTGTCGCTACCCCTCCTCCAGCAGCAGCTCTTACCCCAACTTTGTCCGAAACTTCCATTGACAAGTTGAAGTTATCAAGCCCTGAACTTCCCAAGCCATGGGACAGTGGAGACCTGCCACTGGATGAAGAGAATCCTAACTCTCTTCAAGAGCTTCCTCACCCAAGAGCGGTTGTAATGTCTGTGGCTAATGAAGAACCTGAGAGTGTGGACTTTTCTGCTCAGCCTGCACCTCCGGAGCCAGCTCCCTCAGCACCACTTCCTGAGGGCACCAAGGCCCCTTCCCTCCAGCGAGTACCAAGTTCAGGTTCATCCACCCTGGAGAACACTCTGAGCACTGTCACTGAAACAGAAACGCTAGACAGGCATATATCTGAAGGGGAGATCTTATTTAGCTGTGGTCAAAACTTGGCTACCAAGAGACCTGGGGACTTGTTTCTGATGAACATAAATGACAGCTTATCCAGCACTCTGCAGGATGCCCTTGAAATGGAAGATGACCCTCCCAGTGAAGGGCAGGTGATTAGGAGGCCCCACAAAAAGCGTCATGAAGATGCCATCGTTGCCCTTCTTACTAAGCAACAACGGGAGTTATTAGTTTCACAGCAAGAGGAGGACTTGGATAACAGCGTGGGTGAGCTTAGTGAAGGACAGAGGCTCGTGCTGAAAGCAGCAGAGGACATCTCAGCAGGACCGTCCGGCCAAATGCTGCCGCCCACTTCTCCTGCAGAGCCCTCCTATCAGCACGCAGACCCTCGGCTGGTATTGCAGCAGTCTGACATGGCCTCA
Peptide sequence:
MVDARVPVNSDMVSHFVNEALTETIAVMLADREAERQRAAATSVPGDLSGTETNLLARVCAPVATPQPTPPCSPSPVREHVRVKTPDSSPCESDPDAASSIKEIRVEKGSDMPAVMLVSTPTRTPVATPPPAAALTPTLSETSIDKLKLSSPELPKPWDSGDLPLDEENPNSLQELPHPRAVVMSVANEEPESVDFSAQPAPPEPAPSAPLPEGTKAPSLQRVPSSGSSTLENTLSTVTETETLDRHISEGEILFSCGQNLATKRPGDLFLMNINDSLSSTLQDALEMEDDPPSEGQVIRRPHKKRHEDAIVALLTKQQRELLVSQQEEDLDNSVGELSEGQRLVLKAAEDISAGPSGQMLPPTSPAEPSYQHADPRLVLQQSDMASVAGTSSGALQRMVDARVPVNSDMVSHFVNEALTETIAVMLADREAERQRAAATSVPGDLSGTETNLLARVCAPVATPQPTPPCSPSPVREHVRVKTPDSSPCESDPDAASSIKEIRVEKGSDMPAVMLVSTPTRTPVATPPPAAALTPTLSETSIDKLKLSSPELPKPWDSGDLPLDEENPNSLQELPHPRAVVMSVANEEPESVDFSAQPAPPEPAPSAPLPEGTKAPSLQRVPSSGSSTLENTLSTVTETETLDRHISEGEILFSCGQNLATKRPGDLFLMNINDSLSSTLQDALEMEDDPPSEGQVIRRPHKKRHEDAIVALLTKQQRELLVSQQEEDLDNSVGELSEGQRLVLKAAEDISAGPSGQMLPPTSPAEPSYQHADPRLVLQQSDMAS
IRESfinder result
IRESfinder score
0.429802999
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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