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mmu_circGpatch11_670
Basic information of circular RNA
PanCircBase ID:
mmu_circGpatch11_670
mm39_Chr. Position ID:
chr17|79145259|79149658|+
Gene name:
Gpatch11
Transcript:
ENSMUST00000170759.3
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
3,4,5,6,7,8
Exon/intron offsets:
0,1156,2247,3132,3388,4282
Genomic length:
4399
Exon/intron sizes in nt:
72,22,74,21,21,91,117
Flanking exon/introns:
chr17:79144349-79145259|chr17:79149658-79151247
Splice length:
670
Other database IDs:
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_145832
Human Ortholog IDs:
Mature spliced Sequence:
GTAGTGTTGTCAGATGAAGGAGAGCATGACAGAAGAGGAGGACTATATGTCGGATTCCTTCATTAATGTTCAAGAAGATGTCAGACCCGGTGTGCCGATGCTGAGGCAGATCCGAGAAGCCCGTCGGAAAGAAGAAAAGCAACAGCAAGCTAATCTGAGAAACAGGCAGAAGAGCGTAAAAGAAGAAGAGCGGGAAAGACGTGACATCGGGTTGAAGAATGCACTCGGCTGTGAAAACAAAGGGTTCGCTCTGCTCCAAAAGATGGGATACAAGAGTGGGCAGGCTCTAGGCAAGAGCGGAGATGGTATTGTTGAACCAATTCCTCTCAATGTCAAAACAGGAAAAAGTGGCATAGGTCATGAGTCATCATTAAAACGGAAAGCGGAGGAGAGGCTGGAAAACTACAGGAGAAAAATTCACATGAAAAACCAAAATGAAGCAAAGGCCGCCGAGGAGTTTCGGATGCGACTGAAGAGTAAGCAGGATGAAATGAGGCTCGAAGGAGACCTGAGAAGAAGCCAGCGAGCTTGCCAGCAGCTGGATGCCCAGAAGAATATTCAGGTTCCCAGGGAGGCGTGGTACTGGCTGAGGCCTGAAGAGGAGACCGAGGAAGAGGAAGAGGAAAAGGAAGAACAGGATGAAGATGAGTGCCCGAGTGAAGATTTGAGT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCTGAAGAGGAGACCGAGGA
60.03
CACACCGGGTCTGACATCTT
59.68
172
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAGGAGACCGAGGAAGAGGA
59.74
CACACCGGGTCTGACATCTT
59.68
166
PCR template sequence:
GGAGGCGTGGTACTGGCTGAGGCCTGAAGAGGAGACCGAGGAAGAGGAAGAGGAAAAGGAAGAACAGGATGAAGATGAGTGCCCGAGTGAAGATTTGAGTGTAGTGTTGTCAGATGAAGGAGAGCATGACAGAAGAGGAGGACTATATGTCGGATTCCTTCATTAATGTTCAAGAAGATGTCAGACCCGGTGTGCCGATG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-192-5p(1), mmu-miR-215-5p(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGAAGATTTGAGTGTAGTGTTGTCAG
siRNA sets
AACACTACACTCAAATCTT, CAACACTACACTCAAATCT, ACAACACTACACTCAAATC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCGPATCH11_670_ORF_1
1.0253
0.31158113
0.957854936
723
ORF sequence:
ATGAAGGAGAGCATGACAGAAGAGGAGGACTATATGTCGGATTCCTTCATTAATGTTCAAGAAGATGTCAGACCCGGTGTGCCGATGCTGAGGCAGATCCGAGAAGCCCGTCGGAAAGAAGAAAAGCAACAGCAAGCTAATCTGAGAAACAGGCAGAAGAGCGTAAAAGAAGAAGAGCGGGAAAGACGTGACATCGGGTTGAAGAATGCACTCGGCTGTGAAAACAAAGGGTTCGCTCTGCTCCAAAAGATGGGATACAAGAGTGGGCAGGCTCTAGGCAAGAGCGGAGATGGTATTGTTGAACCAATTCCTCTCAATGTCAAAACAGGAAAAAGTGGCATAGGTCATGAGTCATCATTAAAACGGAAAGCGGAGGAGAGGCTGGAAAACTACAGGAGAAAAATTCACATGAAAAACCAAAATGAAGCAAAGGCCGCCGAGGAGTTTCGGATGCGACTGAAGAGTAAGCAGGATGAAATGAGGCTCGAAGGAGACCTGAGAAGAAGCCAGCGAGCTTGCCAGCAGCTGGATGCCCAGAAGAATATTCAGGTTCCCAGGGAGGCGTGGTACTGGCTGAGGCCTGAAGAGGAGACCGAGGAAGAGGAAGAGGAAAAGGAAGAACAGGATGAAGATGAGTGCCCGAGTGAAGATTTGAGTGTAGTGTTGTCAGATGAAGGAGAGCATGACAGAAGAGGAGGACTATATGTCGGATTCCTTCATTAA
Peptide sequence:
MKESMTEEEDYMSDSFINVQEDVRPGVPMLRQIREARRKEEKQQQANLRNRQKSVKEEERERRDIGLKNALGCENKGFALLQKMGYKSGQALGKSGDGIVEPIPLNVKTGKSGIGHESSLKRKAEERLENYRRKIHMKNQNEAKAAEEFRMRLKSKQDEMRLEGDLRRSQRACQQLDAQKNIQVPREAWYWLRPEEETEEEEEEKEEQDEDECPSEDLSVVLSDEGEHDRRGGLYVGFLH
IRESfinder result
IRESfinder score
0.178627102
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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