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mmu_circUsp7_994
Basic information of circular RNA
PanCircBase ID:
mmu_circUsp7_994
mm39_Chr. Position ID:
chr16|8509009|8513780|-
Gene name:
Usp7
Transcript:
ENSMUST00000160405.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
31,30,29,28,27,26,25,24,23,22
Exon/intron offsets:
0,209,410,1234,1872,2556,2724,3267,3885,4670
Genomic length:
4771
Exon/intron sizes in nt:
9,17,21,20,10,01,01,78,00,00,00,00,000
Flanking exon/introns:
chr16:8508750-8509009|chr16:8513780-8514540
Splice length:
994
Other database IDs:
circAtlas: mmu-Usp7_0047
Human Ortholog IDs:
Mature spliced Sequence:
GAAGTTAAGCCGAATTTAACAGAGAGAATTCAGGACTATGATGTGTCTCTTGATAAAGCCCTTGATGAGCTGATGGATGGTGACATCATAGTGTTTCAGAAGGATGACCCAGAAAACGATAACAGTGAGCTGCCCACTGCTAAAGAGTATTTCAGAGATCTCTACCACCGGGTCGACGTCATCTTCTGTGACAAAACGATCCCCAATGACCCTGGATTTGTGGTCACATTATCAAATAGGATGAACTATTTTCAGGTTGCAAAGACAGTTGCACAGAGGCTCAACACAGACCCCATGCTGCTGCAGTTTTTCAAGTCTCAAGGTTATAGGGACGGCCCCGGTAATCCTCTTAGGCATAATTACGAAGGTACTTTAAGAGATCTTCTACAATTCTTCAAGCCAAGACAACCTAAGAAACTTTACTATCAGCAACTTAAGATGAAAATCACAGACTTTGAGAACAGGAGAAGTTTTAAGTGTATATGGTTAAACAGCCAATTTAGGGAAGAGGAAATAACACTATACCCAGACAAGCATGGCTGTGTCCGGGACCTGTTAGAAGAATGTAAAAAAGCCGTGGAGCTCGGTGACAAAGCATCAGGGAGACTTAGGCTGCTAGAAATTGTGAGCTACAAAATTATTGGTGTGCATCAAGAAGATGAACTATTAGAATGCTTATCTCCTGCAACGAGTCGGACTTTTAGAATAGAGGAAATACCTTTGGACCAGGTAGACATAGATAAGGAAAACGAGATGCTAATCACAGTGGCACATTTCCACAAAGAGGTGTTTGGGACGTTTGGAATTCCATTTTTGCTAAGGATACACCAGGGTGAGCATTTCCGAGAGGTGATGAAGCGGATACAGAGCCTGCTGGACATCCAGGAGAAGGAGTTTGAAAAGTTTAAATTTGCAATTGTCATGATGGGCCGGCACCAGTACATCAATGAAGATGAGTATGAAGTAAATTTGAAGGACTTTGAGCCACAACCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCAATTGTCATGATGGGCCG
60.25
TCCATCAGCTCATCAAGGGC
59.82
159
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCAATTGTCATGATGGGCCG
60.25
CCATCAGCTCATCAAGGGCT
59.82
158
PCR template sequence:
TTTGAAAAGTTTAAATTTGCAATTGTCATGATGGGCCGGCACCAGTACATCAATGAAGATGAGTATGAAGTAAATTTGAAGGACTTTGAGCCACAACCTGGAAGTTAAGCCGAATTTAACAGAGAGAATTCAGGACTATGATGTGTCTCTTGATAAAGCCCTTGATGAGCTGATGGATGGTGACATCATAGTGTTTCAGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-207(2), mmu-miR-182-5p(1), mmu-miR-382-5p(1), mmu-miR-335-3p(1), mmu-miR-484(1)
siRNAs for circular RNA silencing
Junction sequence
GAGCCACAACCTGGAAGTTAAGCCGA
siRNA sets
TTAACTTCCAGGTTGTGGC, TAACTTCCAGGTTGTGGCT, AACTTCCAGGTTGTGGCTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCUSP7_994_ORF_1
1.174
0.187856238
0.987542674
930
ORF sequence:
ATGGATGGTGACATCATAGTGTTTCAGAAGGATGACCCAGAAAACGATAACAGTGAGCTGCCCACTGCTAAAGAGTATTTCAGAGATCTCTACCACCGGGTCGACGTCATCTTCTGTGACAAAACGATCCCCAATGACCCTGGATTTGTGGTCACATTATCAAATAGGATGAACTATTTTCAGGTTGCAAAGACAGTTGCACAGAGGCTCAACACAGACCCCATGCTGCTGCAGTTTTTCAAGTCTCAAGGTTATAGGGACGGCCCCGGTAATCCTCTTAGGCATAATTACGAAGGTACTTTAAGAGATCTTCTACAATTCTTCAAGCCAAGACAACCTAAGAAACTTTACTATCAGCAACTTAAGATGAAAATCACAGACTTTGAGAACAGGAGAAGTTTTAAGTGTATATGGTTAAACAGCCAATTTAGGGAAGAGGAAATAACACTATACCCAGACAAGCATGGCTGTGTCCGGGACCTGTTAGAAGAATGTAAAAAAGCCGTGGAGCTCGGTGACAAAGCATCAGGGAGACTTAGGCTGCTAGAAATTGTGAGCTACAAAATTATTGGTGTGCATCAAGAAGATGAACTATTAGAATGCTTATCTCCTGCAACGAGTCGGACTTTTAGAATAGAGGAAATACCTTTGGACCAGGTAGACATAGATAAGGAAAACGAGATGCTAATCACAGTGGCACATTTCCACAAAGAGGTGTTTGGGACGTTTGGAATTCCATTTTTGCTAAGGATACACCAGGGTGAGCATTTCCGAGAGGTGATGAAGCGGATACAGAGCCTGCTGGACATCCAGGAGAAGGAGTTTGAAAAGTTTAAATTTGCAATTGTCATGATGGGCCGGCACCAGTACATCAATGAAGATGAGTATGAAGTAAATTTGAAGGACTTTGAGCCACAACCTGGAAGTTAA
Peptide sequence:
MDGDIIVFQKDDPENDNSELPTAKEYFRDLYHRVDVIFCDKTIPNDPGFVVTLSNRMNYFQVAKTVAQRLNTDPMLLQFFKSQGYRDGPGNPLRHNYEGTLRDLLQFFKPRQPKKLYYQQLKMKITDFENRRSFKCIWLNSQFREEEITLYPDKHGCVRDLLEECKKAVELGDKASGRLRLLEIVSYKIIGVHQEDELLECLSPATSRTFRIEEIPLDQVDIDKENEMLITVAHFHKEVFGTFGIPFLLRIHQGEHFREVMKRIQSLLDIQEKEFEKFKFAIVMMGRHQYINEDEYEVNLKDFEPQPGS
IRESfinder result
IRESfinder score
0.551535278
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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