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mmu_circTasp1_682
Basic information of circular RNA
PanCircBase ID:
mmu_circTasp1_682
mm39_Chr. Position ID:
chr2|139699621|139827128|-
Gene name:
Tasp1
Transcript:
ENSMUST00000046656.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
13,12,11,10,9,8,7
Exon/intron offsets:
0,26070,52831,89455,93758,119905,127427
Genomic length:
127507
Exon/intron sizes in nt:
74,111,111,79,120,107,80
Flanking exon/introns:
chr2:139676367-139699621|chr2:139827128-139837992
Splice length:
682
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
CTTTTTAGTTGGAGAAGGAGCCTACAGATGGGCAGTGGATCATGGGATACCCTCTTGCCCTCCTAGCACCATGACCACAAGATTCAGCTTAGCTGCATTTAAAAGGAACAAGAGGAAACTAGAGCTGGCAGAAAGGGTGGAAACAGACTTCATCCAGCTGAAGAGAAGACGACAATCAAGCGCAAAGGAAAATGACTCAGGCACTTTGGACACGGTGGGTGCTGTGGTCGTGGATCACGAAGGGAATGTTGCTGCTGCTGTCTCCAGTGGGGGCTTGGCCTTGAAACATCCAGGGAGAGTTGGGCAGGCTGCTCTTTATGGATGTGGCTGCTGGGCTGAGAATACTGGCGCTCAGAACCCCTACTCCACAGCTGTGAGTACCTCAGGATGTGGCGAGCATCTTGTGCGCACCATACTGGCTAGAGAATGTTCACACGCTTTACAAGCTGAAGATGCTCACCAAGCTCTGTTGGAGACTATGCAAAACAAGTTTATCAGTTCACCTTTCCTTGCCTGTGAAGATGGCGTGCTCGGTGGAGTGATCGTTCTCCGGTCATGCAGATGTTCTTCAGAGTCTGACTCCTCCCAAGATAAACAGACACTGCTTGTGGAATTTCTGTGGAGCCATACTACAGAGAGCATGTGCGTGGGATATATGTCAGCCCAGGACGGCAAAGCCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGGAATTTCTGTGGAGCCA
59.86
GTGGTCATGGTGCTAGGAGG
59.82
154
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGGAATTTCTGTGGAGCCA
59.86
GCTAGGAGGGCAAGAGGGTA
60.4
143
PCR template sequence:
CTCCCAAGATAAACAGACACTGCTTGTGGAATTTCTGTGGAGCCATACTACAGAGAGCATGTGCGTGGGATATATGTCAGCCCAGGACGGCAAAGCCAAGCTTTTTAGTTGGAGAAGGAGCCTACAGATGGGCAGTGGATCATGGGATACCCTCTTGCCCTCCTAGCACCATGACCACAAGATTCAGCTTAGCTGCATTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
12
Interacting miRNAs (#binding sites)
mmu-miR-16-5p(1), mmu-miR-20a-5p(1), mmu-miR-17-5p(1), mmu-miR-31-5p(1), mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-503-5p(1), mmu-miR-153-3p(1), mmu-miR-676-3p(1), mmu-miR-673-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CGGCAAAGCCAAGCTTTTTAGTTGGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTASP1_682_ORF_1
0.6794
0.111433308
0.79194592
678
ORF sequence:
ATGACCACAAGATTCAGCTTAGCTGCATTTAAAAGGAACAAGAGGAAACTAGAGCTGGCAGAAAGGGTGGAAACAGACTTCATCCAGCTGAAGAGAAGACGACAATCAAGCGCAAAGGAAAATGACTCAGGCACTTTGGACACGGTGGGTGCTGTGGTCGTGGATCACGAAGGGAATGTTGCTGCTGCTGTCTCCAGTGGGGGCTTGGCCTTGAAACATCCAGGGAGAGTTGGGCAGGCTGCTCTTTATGGATGTGGCTGCTGGGCTGAGAATACTGGCGCTCAGAACCCCTACTCCACAGCTGTGAGTACCTCAGGATGTGGCGAGCATCTTGTGCGCACCATACTGGCTAGAGAATGTTCACACGCTTTACAAGCTGAAGATGCTCACCAAGCTCTGTTGGAGACTATGCAAAACAAGTTTATCAGTTCACCTTTCCTTGCCTGTGAAGATGGCGTGCTCGGTGGAGTGATCGTTCTCCGGTCATGCAGATGTTCTTCAGAGTCTGACTCCTCCCAAGATAAACAGACACTGCTTGTGGAATTTCTGTGGAGCCATACTACAGAGAGCATGTGCGTGGGATATATGTCAGCCCAGGACGGCAAAGCCAAGCTTTTTAGTTGGAGAAGGAGCCTACAGATGGGCAGTGGATCATGGGATACCCTCTTGCCCTCCTAG
Peptide sequence:
MTTRFSLAAFKRNKRKLELAERVETDFIQLKRRRQSSAKENDSGTLDTVGAVVVDHEGNVAAAVSSGGLALKHPGRVGQAALYGCGCWAENTGAQNPYSTAVSTSGCGEHLVRTILARECSHALQAEDAHQALLETMQNKFISSPFLACEDGVLGGVIVLRSCRCSSESDSSQDKQTLLVEFLWSHTTESMCVGYMSAQDGKAKLFSWRRSLQMGSGSWDTLLPS
IRESfinder result
IRESfinder score
0.40090009
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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