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mmu_circIrf2_700
Basic information of circular RNA
PanCircBase ID:
mmu_circIrf2_700
mm39_Chr. Position ID:
chr8|47246527|47290873|+
Gene name:
Irf2
Transcript:
ENSMUST00000034041.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
2,3,4,5,6,7
Exon/intron offsets:
0,12978,13729,14212,25298,44181
Genomic length:
44346
Exon/intron sizes in nt:
93,100,177,47,118,165
Flanking exon/introns:
chr8:47192971-47246527|chr8:47290873-47297855
Splice length:
700
Other database IDs:
circBase: mmu_circ_0014845, CIRCpedia: MMU_CIRCpedia_20961, circAtlas: mmu-Irf2_0002
circAtlas: hsa-IRF2_0005, CIRCpedia: HSA_CIRCpedia_48067
Human Ortholog IDs:
Mature spliced Sequence:
GGTACCATGCCGGTGGAACGGATGCGAATGCGCCCGTGGCTGGAGGAGCAGATAAATTCCAATACGATACCAGGGCTAAAGTGGCTGAACAAGGAGAAGAAGATTTTCCAGATCCCCTGGATGCATGCGGCTCGGCACGGATGGGACGTGGAAAAGGATGCTCCGCTCTTCAGAAACTGGGCGATCCATACAGGAAAGCATCAACCAGGAATAGATAAACCAGATCCAAAAACATGGAAAGCAAATTTTCGATGTGCCATGAATTCCCTGCCCGACATTGAGGAAGTGAAGGACAGAAGCATAAAGAAAGGAAACAACGCCTTCAGAGTCTACCGGATGCTGCCCTTATCCGAACGACCTTCCAAGAAAGGAAAGAAACCAAAGACAGAAAAAGAAGAGAGAGTTAAGCACATCAAGCAAGAACCAGTTGAGTCATCTTTGGGGCTTAGTAATGGAGTAAGTGGCTTTTCTCCTGAGTATGCGGTCCTGACTTCAGCTATAAAAAATGAAGTGGATAGTACGGTGAACATCATAGTTGTAGGACAGTCCCATCTGGACAGCAACATTGAAGATCAAGAGATCGTCACTAACCCGCCAGACATCTGCCAGGTTGTAGAAGTGACCACTGAGAGTGATGACCAGCCAGTCAGCATGAGTGAGCTCTACCCTCTACAGATTTCTCCTGTGTCTTCCTACGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGAGAGTGATGACCAGCCAG
59.1
TTCAGCCACTTTAGCCCTGG
59.96
163
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTGAGAGTGATGACCAGCCA
59.1
TTCAGCCACTTTAGCCCTGG
59.96
164
PCR template sequence:
ATCTGCCAGGTTGTAGAAGTGACCACTGAGAGTGATGACCAGCCAGTCAGCATGAGTGAGCTCTACCCTCTACAGATTTCTCCTGTGTCTTCCTACGCAGGGTACCATGCCGGTGGAACGGATGCGAATGCGCCCGTGGCTGGAGGAGCAGATAAATTCCAATACGATACCAGGGCTAAAGTGGCTGAACAAGGAGAAGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-7a-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-218-5p(1), mmu-miR-183-5p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
TCTTCCTACGCAGGGTACCATGCCGG
siRNA sets
CATGGTACCCTGCGTAGGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCIRF2_700_ORF_1
0.9284
0.255525937
0.983319161
912
ORF sequence:
ATGCCGGTGGAACGGATGCGAATGCGCCCGTGGCTGGAGGAGCAGATAAATTCCAATACGATACCAGGGCTAAAGTGGCTGAACAAGGAGAAGAAGATTTTCCAGATCCCCTGGATGCATGCGGCTCGGCACGGATGGGACGTGGAAAAGGATGCTCCGCTCTTCAGAAACTGGGCGATCCATACAGGAAAGCATCAACCAGGAATAGATAAACCAGATCCAAAAACATGGAAAGCAAATTTTCGATGTGCCATGAATTCCCTGCCCGACATTGAGGAAGTGAAGGACAGAAGCATAAAGAAAGGAAACAACGCCTTCAGAGTCTACCGGATGCTGCCCTTATCCGAACGACCTTCCAAGAAAGGAAAGAAACCAAAGACAGAAAAAGAAGAGAGAGTTAAGCACATCAAGCAAGAACCAGTTGAGTCATCTTTGGGGCTTAGTAATGGAGTAAGTGGCTTTTCTCCTGAGTATGCGGTCCTGACTTCAGCTATAAAAAATGAAGTGGATAGTACGGTGAACATCATAGTTGTAGGACAGTCCCATCTGGACAGCAACATTGAAGATCAAGAGATCGTCACTAACCCGCCAGACATCTGCCAGGTTGTAGAAGTGACCACTGAGAGTGATGACCAGCCAGTCAGCATGAGTGAGCTCTACCCTCTACAGATTTCTCCTGTGTCTTCCTACGCAGGGTACCATGCCGGTGGAACGGATGCGAATGCGCCCGTGGCTGGAGGAGCAGATAAATTCCAATACGATACCAGGGCTAAAGTGGCTGAACAAGGAGAAGAAGATTTTCCAGATCCCCTGGATGCATGCGGCTCGGCACGGATGGGACGTGGAAAAGGATGCTCCGCTCTTCAGAAACTGGGCGATCCATACAGGAAAGCATCAACCAGGAATAGATAA
Peptide sequence:
MPVERMRMRPWLEEQINSNTIPGLKWLNKEKKIFQIPWMHAARHGWDVEKDAPLFRNWAIHTGKHQPGIDKPDPKTWKANFRCAMNSLPDIEEVKDRSIKKGNNAFRVYRMLPLSERPSKKGKKPKTEKEERVKHIKQEPVESSLGLSNGVSGFSPEYAVLTSAIKNEVDSTVNIIVVGQSHLDSNIEDQEIVTNPPDICQVVEVTTESDDQPVSMSELYPLQISPVSSYAGYHAGGTDANAPVAGGADKFQYDTRAKVAEQGEEDFPDPLDACGSARMGRGKGCSALQKLGDPYRKASTRNR
IRESfinder result
IRESfinder score
0.339824557
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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