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mmu_circSec31a_306
Basic information of circular RNA
PanCircBase ID:
mmu_circSec31a_306
mm39_Chr. Position ID:
chr5|100531655|100533161|-
Gene name:
Sec31a
Transcript:
ENSMUST00000094578.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
17,16
Exon/intron offsets:
0,1327
Genomic length:
1506
Exon/intron sizes in nt:
1,27,179
Flanking exon/introns:
chr5:100530766-100531655|chr5:100533161-100533986
Splice length:
306
Other database IDs:
circBase: hsa_circ_0127085, circAtlas: hsa-SEC31A_0048, CIRCpedia: HSA_CIRCpedia_49293
Human Ortholog IDs:
Mature spliced Sequence:
ATATTGACGGTCTAATTACCCGGGCCTTGCTGACAGGCAATTTTGAGAGTGCAGTTGACCTTTGCTTACATGATAACCGAATGGCTGATGCCATTATATTAGCCATAGCAGGTGGACAGGAACTCTTGGCTCAAACACAAAAGAAATACTTCGCAAAATCCCAAAGCAAAATTACCAGGCTTATCACTGCAGTGGTGATGAAGAACTGGAGGGAGATTGTTGAATCCTGTGATCTTAAGAATTGGAGAGAGGCTTTAGCTGCAGTCCTCACTTACGCTAAACCAGACGAGTTCTCGGCCCTGTGCG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGCTTTAGCTGCAGTCCTCA
60.04
GCATCAGCCATTCGGTTATCA
58.78
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGCTGCAGTCCTCACTTACG
59.76
GCATCAGCCATTCGGTTATCA
58.78
141
PCR template sequence:
TGGAGGGAGATTGTTGAATCCTGTGATCTTAAGAATTGGAGAGAGGCTTTAGCTGCAGTCCTCACTTACGCTAAACCAGACGAGTTCTCGGCCCTGTGCGATATTGACGGTCTAATTACCCGGGCCTTGCTGACAGGCAATTTTGAGAGTGCAGTTGACCTTTGCTTACATGATAACCGAATGGCTGATGCCATTATATT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
NA
Interacting miRNAs (#binding sites)
NA
siRNAs for circular RNA silencing
Junction sequence
TCGGCCCTGTGCGATATTGACGGTCT
siRNA sets
TCAATATCGCACAGGGCCG, GTCAATATCGCACAGGGCC, CAATATCGCACAGGGCCGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSEC31A_306_ORF_1
1.0157
0.138550482
0.736869723
531
ORF sequence:
ATGGCTGATGCCATTATATTAGCCATAGCAGGTGGACAGGAACTCTTGGCTCAAACACAAAAGAAATACTTCGCAAAATCCCAAAGCAAAATTACCAGGCTTATCACTGCAGTGGTGATGAAGAACTGGAGGGAGATTGTTGAATCCTGTGATCTTAAGAATTGGAGAGAGGCTTTAGCTGCAGTCCTCACTTACGCTAAACCAGACGAGTTCTCGGCCCTGTGCGATATTGACGGTCTAATTACCCGGGCCTTGCTGACAGGCAATTTTGAGAGTGCAGTTGACCTTTGCTTACATGATAACCGAATGGCTGATGCCATTATATTAGCCATAGCAGGTGGACAGGAACTCTTGGCTCAAACACAAAAGAAATACTTCGCAAAATCCCAAAGCAAAATTACCAGGCTTATCACTGCAGTGGTGATGAAGAACTGGAGGGAGATTGTTGAATCCTGTGATCTTAAGAATTGGAGAGAGGCTTTAGCTGCAGTCCTCACTTACGCTAAACCAGACGAGTTCTCGGCCCTGTGC
Peptide sequence:
MADAIILAIAGGQELLAQTQKKYFAKSQSKITRLITAVVMKNWREIVESCDLKNWREALAAVLTYAKPDEFSALCDIDGLITRALLTGNFESAVDLCLHDNRMADAIILAIAGGQELLAQTQKKYFAKSQSKITRLITAVVMKNWREIVESCDLKNWREALAAVLTYAKPDEFSALC
IRESfinder result
IRESfinder score
0.5273654
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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