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mmu_circGspt1_303
Basic information of circular RNA
PanCircBase ID:
mmu_circGspt1_303
mm39_Chr. Position ID:
chr16|11056735|11058704|-
Gene name:
Gspt1
Transcript:
ENSMUST00000167571.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
4,3,2
Exon/intron offsets:
0,1794,1933
Genomic length:
1969
Exon/intron sizes in nt:
225,42,36
Flanking exon/introns:
chr16:11055428-11056735|chr16:11058704-11071506
Splice length:
303
Other database IDs:
circBase: hsa_circ_0007968, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_16361
Human Ortholog IDs:
Mature spliced Sequence:
AACCTGTAGAGTCCTCTCAAGACCAGTCGTGTGAAGGTTCAAATTCTACTGTTAGCATGGAACTTTCAGAACCTGTTGAAAATGGAGAGACAGAAATGTCCCCAGAAGAATCATGGGAGCACAAAGAAGAAATAAGTGAAGCGGAGCCAGGGGGTGGTTCCTCAGGAGATGGAAGGCCACCAGAGGAAAGCACCCAAGAAATGATGGAGGAGGAGGAAGAAATACCGAAACCTAAGTCAGCGGTGGCACCACCAGGTGCTCCCAAGAAGGAACATGTAAATGTAGTGTTCATCGGACATGTTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCGAAACCTAAGTCAGCGGT
60.04
ACAGGTTCTGAAAGTTCCATGC
59.11
155
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACCGAAACCTAAGTCAGCGG
60.04
ACAGGTTCTGAAAGTTCCATGC
59.11
156
PCR template sequence:
ATGGAGGAGGAGGAAGAAATACCGAAACCTAAGTCAGCGGTGGCACCACCAGGTGCTCCCAAGAAGGAACATGTAAATGTAGTGTTCATCGGACATGTTGAACCTGTAGAGTCCTCTCAAGACCAGTCGTGTGAAGGTTCAAATTCTACTGTTAGCATGGAACTTTCAGAACCTGTTGAAAATGGAGAGACAGAAATGTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-149-5p(1), mmu-miR-434-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATCGGACATGTTGAACCTGTAGAGTC
siRNA sets
TACAGGTTCAACATGTCCG, CTACAGGTTCAACATGTCC, TCTACAGGTTCAACATGTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCGSPT1_303_ORF_1
1.0497
0.228408121
0.830673885
549
ORF sequence:
ATGGAACTTTCAGAACCTGTTGAAAATGGAGAGACAGAAATGTCCCCAGAAGAATCATGGGAGCACAAAGAAGAAATAAGTGAAGCGGAGCCAGGGGGTGGTTCCTCAGGAGATGGAAGGCCACCAGAGGAAAGCACCCAAGAAATGATGGAGGAGGAGGAAGAAATACCGAAACCTAAGTCAGCGGTGGCACCACCAGGTGCTCCCAAGAAGGAACATGTAAATGTAGTGTTCATCGGACATGTTGAACCTGTAGAGTCCTCTCAAGACCAGTCGTGTGAAGGTTCAAATTCTACTGTTAGCATGGAACTTTCAGAACCTGTTGAAAATGGAGAGACAGAAATGTCCCCAGAAGAATCATGGGAGCACAAAGAAGAAATAAGTGAAGCGGAGCCAGGGGGTGGTTCCTCAGGAGATGGAAGGCCACCAGAGGAAAGCACCCAAGAAATGATGGAGGAGGAGGAAGAAATACCGAAACCTAAGTCAGCGGTGGCACCACCAGGTGCTCCCAAGAAGGAACATGTAAATGTAGTGTTCATCGGACATGTT
Peptide sequence:
MELSEPVENGETEMSPEESWEHKEEISEAEPGGGSSGDGRPPEESTQEMMEEEEEIPKPKSAVAPPGAPKKEHVNVVFIGHVEPVESSQDQSCEGSNSTVSMELSEPVENGETEMSPEESWEHKEEISEAEPGGGSSGDGRPPEESTQEMMEEEEEIPKPKSAVAPPGAPKKEHVNVVFIGHV
IRESfinder result
IRESfinder score
0.357829445
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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