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mmu_circDip2a_976
Basic information of circular RNA
PanCircBase ID:
mmu_circDip2a_976
mm39_Chr. Position ID:
chr10|76110822|76118461|-
Gene name:
Dip2a
Transcript:
ENSMUST00000160048.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
28,27,26,25,24,23,22,21
Exon/intron offsets:
0,1340,1595,3499,4717,4868,5687,7524
Genomic length:
7639
Exon/intron sizes in nt:
110,112,122,124,81,110,202,115
Flanking exon/introns:
chr10:76110113-76110822|chr10:76118461-76121359
Splice length:
976
Other database IDs:
CIRCpedia: MMU_CIRCpedia_220186, circAtlas: mmu-Dip2a_0004
CIRCpedia: HSA_CIRCpedia_96988
Human Ortholog IDs:
Mature spliced Sequence:
GATCGCTGTGTTCTCTGTGACTGTGCTGCACGATGACCGGATTGTCTTGGTGGCTGAGCAGCGGCCTGACGCTTCGGAGGAAGACAGCTTCCAATGGATGAGCCGTGTGCTACAGGCCATCGACAGCATCCACCAGGTGGGTGTGTACTGTTTGGCCCTAGTTCCTGCCAACACTTTGCCCAAGGCTCCTCTGGGAGGAATTCACATTTCTGAAACGAAGCAGCGCTTTCTGGAAGGGACGCTCCACCCATGTAACGTGTTGATGTGCCCTCACACGTGCGTTACCAACCTTCCCAAGCCTCGCCAGAAACAGCCAGAAGTTGGACCAGCCTCGATGATTGTTGGGAACCTGGTTGCTGGAAAAAGGATCGCACAGGCCTCTGGGAGAGAGCTGGCCCACCTGGAGGACAGCGACCAGGCTCGCAAGTTCCTGTTCCTGGCAGACGTGCTGCAGTGGCGGGCTCACACCACTCCTGACCACCCTCTGTTCCTGCTGCTGAATGCTAAGGGCACGGTCACCAGCACTGCAACCTGTATCCAGCTGCACAAAAGGGCTGAGAGAGTGGCTGCCGCTCTGATGGAGAAGGGGCGGCTAGATGCTGGGGACCATGTGGCTTTGGTGTACCCTCCAGGGGTGGATCTTATTGCTGCATTCTATGGCTGCCTGTACTGTGGCTGTGTGCCTGTCACTGTGCGACCCCCACACCCCCAGAACCTTGGCACAACATTGCCCACTGTGAAGATGATTGTAGAGGTCAGCAAATCTGCGTGTGTCCTCAGCACACAGGCCATCACACGGCTGCTCAAGTCCAAAGAGGCAGCTGCCGCTGTAGATGTCAGGACCTGGCCAACCATCCTAGATACAGATGACATTCCAAAAAAGAAGGTGGCTAGCATTTTCAGACCGCCCTCCCCAGACGTGCTCGCGTACTTGGACTTCAGTGTGTCAACGACAGGGATCTTAGCTGGAGTTAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTAGCATTTTCAGACCGCC
59.62
CCACCAAGACAATCCGGTCA
59.96
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGCTAGCATTTTCAGACCGC
59.62
CCACCAAGACAATCCGGTCA
59.96
141
PCR template sequence:
AAAAAAGAAGGTGGCTAGCATTTTCAGACCGCCCTCCCCAGACGTGCTCGCGTACTTGGACTTCAGTGTGTCAACGACAGGGATCTTAGCTGGAGTTAAGGATCGCTGTGTTCTCTGTGACTGTGCTGCACGATGACCGGATTGTCTTGGTGGCTGAGCAGCGGCCTGACGCTTCGGAGGAAGACAGCTTCCAATGGATG
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-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-93-5p(1), mmu-miR-139-5p(1), mmu-miR-214-3p(1), mmu-miR-503-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGCTGGAGTTAAGGATCGCTGTGTTC
siRNA sets
AACACAGCGATCCTTAACT, CAGCGATCCTTAACTCCAG, CACAGCGATCCTTAACTCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDIP2A_976_ORF_1
1.1226
0.274161854
0.989257832
915
ORF sequence:
ATGAGCCGTGTGCTACAGGCCATCGACAGCATCCACCAGGTGGGTGTGTACTGTTTGGCCCTAGTTCCTGCCAACACTTTGCCCAAGGCTCCTCTGGGAGGAATTCACATTTCTGAAACGAAGCAGCGCTTTCTGGAAGGGACGCTCCACCCATGTAACGTGTTGATGTGCCCTCACACGTGCGTTACCAACCTTCCCAAGCCTCGCCAGAAACAGCCAGAAGTTGGACCAGCCTCGATGATTGTTGGGAACCTGGTTGCTGGAAAAAGGATCGCACAGGCCTCTGGGAGAGAGCTGGCCCACCTGGAGGACAGCGACCAGGCTCGCAAGTTCCTGTTCCTGGCAGACGTGCTGCAGTGGCGGGCTCACACCACTCCTGACCACCCTCTGTTCCTGCTGCTGAATGCTAAGGGCACGGTCACCAGCACTGCAACCTGTATCCAGCTGCACAAAAGGGCTGAGAGAGTGGCTGCCGCTCTGATGGAGAAGGGGCGGCTAGATGCTGGGGACCATGTGGCTTTGGTGTACCCTCCAGGGGTGGATCTTATTGCTGCATTCTATGGCTGCCTGTACTGTGGCTGTGTGCCTGTCACTGTGCGACCCCCACACCCCCAGAACCTTGGCACAACATTGCCCACTGTGAAGATGATTGTAGAGGTCAGCAAATCTGCGTGTGTCCTCAGCACACAGGCCATCACACGGCTGCTCAAGTCCAAAGAGGCAGCTGCCGCTGTAGATGTCAGGACCTGGCCAACCATCCTAGATACAGATGACATTCCAAAAAAGAAGGTGGCTAGCATTTTCAGACCGCCCTCCCCAGACGTGCTCGCGTACTTGGACTTCAGTGTGTCAACGACAGGGATCTTAGCTGGAGTTAAGGATCGCTGTGTTCTCTGTGACTGTGCTGCACGATGA
Peptide sequence:
MSRVLQAIDSIHQVGVYCLALVPANTLPKAPLGGIHISETKQRFLEGTLHPCNVLMCPHTCVTNLPKPRQKQPEVGPASMIVGNLVAGKRIAQASGRELAHLEDSDQARKFLFLADVLQWRAHTTPDHPLFLLLNAKGTVTSTATCIQLHKRAERVAAALMEKGRLDAGDHVALVYPPGVDLIAAFYGCLYCGCVPVTVRPPHPQNLGTTLPTVKMIVEVSKSACVLSTQAITRLLKSKEAAAAVDVRTWPTILDTDDIPKKKVASIFRPPSPDVLAYLDFSVSTTGILAGVKDRCVLCDCAAR
IRESfinder result
IRESfinder score
0.348677397
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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