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mmu_circSntg1_554
Basic information of circular RNA
PanCircBase ID:
mmu_circSntg1_554
mm39_Chr. Position ID:
chr1|8695002|9069473|-
Gene name:
Sntg1
Transcript:
ENSMUST00000132064.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
10,9,8,7,6,5,4,3
Exon/intron offsets:
0,53028,53158,54294,57194,157984,179138,374407
Genomic length:
374471
Exon/intron sizes in nt:
103,42,41,58,57,135,54,64
Flanking exon/introns:
chr1:8677376-8695002|chr1:9069473-9273403
Splice length:
554
Other database IDs:
CIRCpedia: MMU_CIRCpedia_32345
Human Ortholog IDs:
Mature spliced Sequence:
ATCTGGCAGTGAGTGTTCCTGCTGCTGTAAGAACAAGAAGCCACCCTGGGTTCCTGTAGCCAAGACCACATCCTTCACAGTGCCACAGCACATGGATTTCAGAACTACCTGTGAGGAGACGAAGACAGGTGTTTGCTTGCTACAAGATGGTAATCAAGAACCTTTTAAAGTCCGGTTACACCTTGCCAGAGACCTGTTGATGCTACAGGAGCAGGATGTGCTGTGTGTGTCTGGTGAGCCTTTCTATTCTGGTGAAAGAACGGTGACCATCAGAAGACAGACAGTAGGAGGATTCGGATTAAGCATAAAGGGAGGTGCAGAACATAACATCCCGGTTGTCATTTCCAAAATATCTAAGGAGCAAAGAGAGCTGTCGGGGCTGCTTTTTATTGGAGATGCAATTCTACAGATAAATGGAATTAATGTGAGGAAATGCAGACATGAGGAGGTGGTTCAGGTTCTTCGGAATGCTGGGGAGGAAGTGACCCTGACAGTGTCATTCTTAAAACGAGCACCTGCTTTCCTCAAACTCCCAGTTAATGAAGACTGTGCAT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGGTTCTTCGGAATGCTGGG
60.04
CTTGGCTACAGGAACCCAGG
60.04
163
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGGTTCTTCGGAATGCTGGG
60.04
GGTCTTGGCTACAGGAACCC
60.04
166
PCR template sequence:
CAGGTTCTTCGGAATGCTGGGGAGGAAGTGACCCTGACAGTGTCATTCTTAAAACGAGCACCTGCTTTCCTCAAACTCCCAGTTAATGAAGACTGTGCATATCTGGCAGTGAGTGTTCCTGCTGCTGTAAGAACAAGAAGCCACCCTGGGTTCCTGTAGCCAAGACCACATCCTTCACAGTGCCACAGCACATGGATTTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-16-5p(1), mmu-miR-135a-5p(1), mmu-miR-211-5p(1), mmu-miR-196a-5p(1), mmu-miR-214-3p(1), mmu-miR-503-5p(1), mmu-miR-697(1)
siRNAs for circular RNA silencing
Junction sequence
GAAGACTGTGCATATCTGGCAGTGAG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSNTG1_554_ORF_1
0.9848
0.039829021
0.620609624
522
ORF sequence:
ATGGATTTCAGAACTACCTGTGAGGAGACGAAGACAGGTGTTTGCTTGCTACAAGATGGTAATCAAGAACCTTTTAAAGTCCGGTTACACCTTGCCAGAGACCTGTTGATGCTACAGGAGCAGGATGTGCTGTGTGTGTCTGGTGAGCCTTTCTATTCTGGTGAAAGAACGGTGACCATCAGAAGACAGACAGTAGGAGGATTCGGATTAAGCATAAAGGGAGGTGCAGAACATAACATCCCGGTTGTCATTTCCAAAATATCTAAGGAGCAAAGAGAGCTGTCGGGGCTGCTTTTTATTGGAGATGCAATTCTACAGATAAATGGAATTAATGTGAGGAAATGCAGACATGAGGAGGTGGTTCAGGTTCTTCGGAATGCTGGGGAGGAAGTGACCCTGACAGTGTCATTCTTAAAACGAGCACCTGCTTTCCTCAAACTCCCAGTTAATGAAGACTGTGCATATCTGGCAGTGAGTGTTCCTGCTGCTGTAAGAACAAGAAGCCACCCTGGGTTCCTGTAG
Peptide sequence:
MDFRTTCEETKTGVCLLQDGNQEPFKVRLHLARDLLMLQEQDVLCVSGEPFYSGERTVTIRRQTVGGFGLSIKGGAEHNIPVVISKISKEQRELSGLLFIGDAILQINGINVRKCRHEEVVQVLRNAGEEVTLTVSFLKRAPAFLKLPVNEDCAYLAVSVPAAVRTRSHPGFL
IRESfinder result
IRESfinder score
0.570895089
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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