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mmu_circEif2d_616
Basic information of circular RNA
PanCircBase ID:
mmu_circEif2d_616
mm39_Chr. Position ID:
chr1|131082904|131089139|+
Gene name:
Eif2d
Transcript:
ENSMUST00000112446.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
3,4,5,6,7
Exon/intron offsets:
0,465,3024,5242,6117
Genomic length:
6235
Exon/intron sizes in nt:
84,91,10,82,15,118
Flanking exon/introns:
chr1:131082156-131082904|chr1:131089139-131091256
Splice length:
616
Other database IDs:
CIRCpedia: MMU_CIRCpedia_224083, circAtlas: mmu-Eif2d_0006
Human Ortholog IDs:
Mature spliced Sequence:
TGTACACACTGTGGGCCTATCCGGATATTCTACCAACTTTTATAACATGGCCTCTGGTATTGGAAAAACTGGTCGGGGGAGCAGATTTGATGCTGCCAGGGGTAGTGGTGCCCCCTACTGGTCTTCCTCAAGTACAGCAAGGCGACCTCTGTGCCATTGCCTTGGTGGGGAACAGAGCGCCCGTTGCAATTGGAGTGGCCGCCATGTCCACAGCTCAGATGCTGGCTTCAGGCCTGAAGGGAAAAGGTGTCTCTGTGCTCCACACTTATCAGGACCACTTGTGGAGATCTGGAGACAAGTCCTCTCCACCTGCCATTGCCCCACTGGACCCCACAGATAGCTGCGAAGAGAAGGTGCACCTTGGTCTGCAGGGAAACCTGAAGAGCCTGACCCTGGACGGAGAGGAGGAGAACGGGCAGGTTCCTCTCCGAGAAGCCTCTGAGGACACCAGCTCCAGGGCCCCGAGCCAGGATTCCTTGGACGGCAAGCCCCTTCAGGAACAAATGGACGATCTGTTACTGCGGTGCTTCCTTCATGCCCTGAAGAGTCGAGTCAAGAAAGCTGACCTCCCGTTGCTCACCAGCACTCTCCTTGGCAGTCACATGTTCTCCTGCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGAAAGCTGACCTCCCGTTG
59.96
AGCATCAAATCTGCTCCCCC
60.11
155
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAAGAAAGCTGACCTCCCGT
59.96
AGCATCAAATCTGCTCCCCC
60.11
157
PCR template sequence:
TACTGCGGTGCTTCCTTCATGCCCTGAAGAGTCGAGTCAAGAAAGCTGACCTCCCGTTGCTCACCAGCACTCTCCTTGGCAGTCACATGTTCTCCTGCTGTGTACACACTGTGGGCCTATCCGGATATTCTACCAACTTTTATAACATGGCCTCTGGTATTGGAAAAACTGGTCGGGGGAGCAGATTTGATGCTGCCAGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-134-5p(1), mmu-miR-18a-5p(1), mmu-miR-7a-5p(1), mmu-miR-138-5p(1), mmu-miR-149-5p(1), mmu-miR-434-5p(1), mmu-miR-194-5p(1), mmu-miR-802-5p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGTTCTCCTGCTGTGTACACACTGTG
siRNA sets
ACAGTGTGTACACAGCAGG, TGTACACAGCAGGAGAACA, CAGTGTGTACACAGCAGGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCEIF2D_616_ORF_1
0.7291
0.163628953
0.953001324
867
ORF sequence:
ATGCTGCCAGGGGTAGTGGTGCCCCCTACTGGTCTTCCTCAAGTACAGCAAGGCGACCTCTGTGCCATTGCCTTGGTGGGGAACAGAGCGCCCGTTGCAATTGGAGTGGCCGCCATGTCCACAGCTCAGATGCTGGCTTCAGGCCTGAAGGGAAAAGGTGTCTCTGTGCTCCACACTTATCAGGACCACTTGTGGAGATCTGGAGACAAGTCCTCTCCACCTGCCATTGCCCCACTGGACCCCACAGATAGCTGCGAAGAGAAGGTGCACCTTGGTCTGCAGGGAAACCTGAAGAGCCTGACCCTGGACGGAGAGGAGGAGAACGGGCAGGTTCCTCTCCGAGAAGCCTCTGAGGACACCAGCTCCAGGGCCCCGAGCCAGGATTCCTTGGACGGCAAGCCCCTTCAGGAACAAATGGACGATCTGTTACTGCGGTGCTTCCTTCATGCCCTGAAGAGTCGAGTCAAGAAAGCTGACCTCCCGTTGCTCACCAGCACTCTCCTTGGCAGTCACATGTTCTCCTGCTGTGTACACACTGTGGGCCTATCCGGATATTCTACCAACTTTTATAACATGGCCTCTGGTATTGGAAAAACTGGTCGGGGGAGCAGATTTGATGCTGCCAGGGGTAGTGGTGCCCCCTACTGGTCTTCCTCAAGTACAGCAAGGCGACCTCTGTGCCATTGCCTTGGTGGGGAACAGAGCGCCCGTTGCAATTGGAGTGGCCGCCATGTCCACAGCTCAGATGCTGGCTTCAGGCCTGAAGGGAAAAGGTGTCTCTGTGCTCCACACTTATCAGGACCACTTGTGGAGATCTGGAGACAAGTCCTCTCCACCTGCCATTGCCCCACTGGACCCCACAGATAG
Peptide sequence:
MLPGVVVPPTGLPQVQQGDLCAIALVGNRAPVAIGVAAMSTAQMLASGLKGKGVSVLHTYQDHLWRSGDKSSPPAIAPLDPTDSCEEKVHLGLQGNLKSLTLDGEEENGQVPLREASEDTSSRAPSQDSLDGKPLQEQMDDLLLRCFLHALKSRVKKADLPLLTSTLLGSHMFSCCVHTVGLSGYSTNFYNMASGIGKTGRGSRFDAARGSGAPYWSSSSTARRPLCHCLGGEQSARCNWSGRHVHSSDAGFRPEGKRCLCAPHLSGPLVEIWRQVLSTCHCPTGPHR
IRESfinder result
IRESfinder score
0.461751464
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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