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mmu_circStard7_553
Basic information of circular RNA
PanCircBase ID:
mmu_circStard7_553
mm39_Chr. Position ID:
chr2|127126014|127134170|+
Gene name:
Stard7
Transcript:
ENSMUST00000110375.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
2,3,4,5,6
Exon/intron offsets:
0,437,6677,6863,8056
Genomic length:
8156
Exon/intron sizes in nt:
20,95,01,11,83,100
Flanking exon/introns:
chr2:127112800-127126014|chr2:127134170-127137403
Splice length:
553
Other database IDs:
circAtlas: mmu-Stard7_0001
circBase: hsa_circ_0055628, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_42671
Human Ortholog IDs:
Mature spliced Sequence:
GTCCATTAATGAGATGAAACGGTTGGAAGAAATGTCAAATATATTTCAGAGCTCTGGAGTTGAGAATTACCCTCCCGAACCAAAGTCCCCAGCAGGAGGGAATGAAAAGTCAAAAGACAAGGAAGAACCCTGGGAAATGGTGATGGACAAGAAACACTTCAAGCTGTGGCGCCGCCCAATTACAGGCACCCACCTTTACCAGTACCGAGTTTTTGGAACATACACAGATGTGACTCCCCGACAGTTCTTCAATGTTCAGCTGGATACAGAGTACAGGAAAAAATGGGATGCCCTTGTGATCAAGCTAGAGGTGATTGAGAGAGATGCTGTTAGTGGTTCTGAGGTTCTTCATTGGGTAACCCATTTTCCTTATCCAATGTACTCTCGTGATTATGTTTATGTTCGGCGGTATAGTGTGGATCAGGAAAACAATGTGATGGTCTTGGTGTCACGTGCGGTGGAACACCCCAGTGTGCCAGAGTCTCCAGAGTTTGTCAGGGTCAGATCTTACGAATCCCAAATGGTTATCCGTCCTCACAAGTCGTTTGATGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAGTGTGCCAGAGTCTCCAG
60.04
GACTTTGGTTCGGGAGGGTA
59.02
172
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAGTGTGCCAGAGTCTCCAG
60.04
GGACTTTGGTTCGGGAGGG
60
173
PCR template sequence:
TGCGGTGGAACACCCCAGTGTGCCAGAGTCTCCAGAGTTTGTCAGGGTCAGATCTTACGAATCCCAAATGGTTATCCGTCCTCACAAGTCGTTTGATGAGGTCCATTAATGAGATGAAACGGTTGGAAGAAATGTCAAATATATTTCAGAGCTCTGGAGTTGAGAATTACCCTCCCGAACCAAAGTCCCCAGCAGGAGGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-184-3p(1), mmu-miR-370-3p(1), mmu-miR-335-3p(1), mmu-miR-542-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GTCGTTTGATGAGGTCCATTAATGAG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSTARD7_553_ORF_1
0.9829
0.194894567
0.799380136
558
ORF sequence:
ATGAGGTCCATTAATGAGATGAAACGGTTGGAAGAAATGTCAAATATATTTCAGAGCTCTGGAGTTGAGAATTACCCTCCCGAACCAAAGTCCCCAGCAGGAGGGAATGAAAAGTCAAAAGACAAGGAAGAACCCTGGGAAATGGTGATGGACAAGAAACACTTCAAGCTGTGGCGCCGCCCAATTACAGGCACCCACCTTTACCAGTACCGAGTTTTTGGAACATACACAGATGTGACTCCCCGACAGTTCTTCAATGTTCAGCTGGATACAGAGTACAGGAAAAAATGGGATGCCCTTGTGATCAAGCTAGAGGTGATTGAGAGAGATGCTGTTAGTGGTTCTGAGGTTCTTCATTGGGTAACCCATTTTCCTTATCCAATGTACTCTCGTGATTATGTTTATGTTCGGCGGTATAGTGTGGATCAGGAAAACAATGTGATGGTCTTGGTGTCACGTGCGGTGGAACACCCCAGTGTGCCAGAGTCTCCAGAGTTTGTCAGGGTCAGATCTTACGAATCCCAAATGGTTATCCGTCCTCACAAGTCGTTTGATGAG
Peptide sequence:
MRSINEMKRLEEMSNIFQSSGVENYPPEPKSPAGGNEKSKDKEEPWEMVMDKKHFKLWRRPITGTHLYQYRVFGTYTDVTPRQFFNVQLDTEYRKKWDALVIKLEVIERDAVSGSEVLHWVTHFPYPMYSRDYVYVRRYSVDQENNVMVLVSRAVEHPSVPESPEFVRVRSYESQMVIRPHKSFDE
IRESfinder result
IRESfinder score
0.551680744
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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