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mmu_circRalgps1_300
Basic information of circular RNA
PanCircBase ID:
mmu_circRalgps1_300
mm39_Chr. Position ID:
chr2|33058192|33064560|-
Gene name:
Ralgps1
Transcript:
ENSMUST00000131298.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
11,10,9
Exon/intron offsets:
0,4237,6230
Genomic length:
6368
Exon/intron sizes in nt:
68,94,138
Flanking exon/introns:
chr2:33049048-33058192|chr2:33064560-33150489
Splice length:
300
Other database IDs:
CIRCpedia: MMU_CIRCpedia_38629
circBase: hsa_circ_0138010, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_62868
Human Ortholog IDs:
Mature spliced Sequence:
GAATCTACCTTCTGGACTTGATCTACATTGATTCTGCATACCCTGCCTCTGGCAGCATCATGGAAAACGAACAACGATCCAACCAGATGAACAACATCCTCCGAATCATTGCCGATTTACAAGTTTCCTGTAGCTATGATCACCTCACTACCCTGCCACATGTGCAAAAGTACCTGAAGTCTGTGCGCTACATCGAGGAGCTCCAGAAGTTTGTAGAAGATGATAATTACAAGTTGTCACTCAGAATCGAACCAGGAAGCAGCTCTCCAAGACTAGTTTCGTCCAAGGAAGATCTTGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATCGAACCAGGAAGCAGCTC
60.11
TCTGGTTGGATCGTTGTTCGT
59.93
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AATCGAACCAGGAAGCAGCT
59.67
TCTGGTTGGATCGTTGTTCGT
59.93
143
PCR template sequence:
CTCCAGAAGTTTGTAGAAGATGATAATTACAAGTTGTCACTCAGAATCGAACCAGGAAGCAGCTCTCCAAGACTAGTTTCGTCCAAGGAAGATCTTGCAGGAATCTACCTTCTGGACTTGATCTACATTGATTCTGCATACCCTGCCTCTGGCAGCATCATGGAAAACGAACAACGATCCAACCAGATGAACAACATCCT
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-375-3p(1), mmu-miR-34c-5p(1), mmu-miR-709(1), mmu-miR-5101(1)
siRNAs for circular RNA silencing
Junction sequence
GAAGATCTTGCAGGAATCTACCTTCT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRALGPS1_300_ORF_1
0.9922
0.36291015
0.87745874
540
ORF sequence:
ATGGAAAACGAACAACGATCCAACCAGATGAACAACATCCTCCGAATCATTGCCGATTTACAAGTTTCCTGTAGCTATGATCACCTCACTACCCTGCCACATGTGCAAAAGTACCTGAAGTCTGTGCGCTACATCGAGGAGCTCCAGAAGTTTGTAGAAGATGATAATTACAAGTTGTCACTCAGAATCGAACCAGGAAGCAGCTCTCCAAGACTAGTTTCGTCCAAGGAAGATCTTGCAGGAATCTACCTTCTGGACTTGATCTACATTGATTCTGCATACCCTGCCTCTGGCAGCATCATGGAAAACGAACAACGATCCAACCAGATGAACAACATCCTCCGAATCATTGCCGATTTACAAGTTTCCTGTAGCTATGATCACCTCACTACCCTGCCACATGTGCAAAAGTACCTGAAGTCTGTGCGCTACATCGAGGAGCTCCAGAAGTTTGTAGAAGATGATAATTACAAGTTGTCACTCAGAATCGAACCAGGAAGCAGCTCTCCAAGACTAGTTTCGTCCAAGGAAGATCTTGCA
Peptide sequence:
MENEQRSNQMNNILRIIADLQVSCSYDHLTTLPHVQKYLKSVRYIEELQKFVEDDNYKLSLRIEPGSSSPRLVSSKEDLAGIYLLDLIYIDSAYPASGSIMENEQRSNQMNNILRIIADLQVSCSYDHLTTLPHVQKYLKSVRYIEELQKFVEDDNYKLSLRIEPGSSSPRLVSSKEDLA
IRESfinder result
IRESfinder score
0.705643219
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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