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mmu_circClint1_432
Basic information of circular RNA
PanCircBase ID:
mmu_circClint1_432
mm39_Chr. Position ID:
chr11|45785886|45797294|+
Gene name:
Clint1
Transcript:
ENSMUST00000109260.3
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
8,9,10
Exon/intron offsets:
0,7151,11121
Genomic length:
11408
Exon/intron sizes in nt:
70,75,287
Flanking exon/introns:
chr11:45784944-45785886|chr11:45797294-45798720
Splice length:
432
Other database IDs:
circAtlas: hsa-CLINT1_0011, CIRCpedia: HSA_CIRCpedia_50960
Human Ortholog IDs:
Mature spliced Sequence:
CCATCGGTGCCGAGCAGCAAGTCCTCGGGGGACCTCGTTGACCTGTTTGATGGCAGTAGCCAGTCAGCAGGTGGATCAGCTGATTTATTTGGGGGATTTGCTGACTTTGGCTCAGCTGCTGCATCAGGCAATTTCCCTTCCCAAGCAACAAGTGGGAATGGTGACTTTGGTGACTGGAGTGCCTTCAACCAAGCCCCATCAGGCCCTGTGGCTTCTGGTGGTGAGCTCTTCGGCAGTGCCCCACAGTCGGCTGTGGAGCTTATCAGTGCTTCACAGCCAGCTTTAGGCCCACCGCCTGCTGCCTCAAACTCGGCAGACCTGTTTGATCTTATGGGCTCATCCCAGGCAACCATGACGTCTTCCCAGAGCATGAATTTCTCTCTCATGAGCACTAACACCGTGGGACTTGGTTTGCCCATGTCCAGATCACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCATCCCAGGCAACCATGAC
60.03
CTGATCCACCTGCTGACTGG
60.11
175
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCATCCCAGGCAACCATGAC
60.03
AAACAGGTCAACGAGGTCCC
59.89
144
PCR template sequence:
GGGCTCATCCCAGGCAACCATGACGTCTTCCCAGAGCATGAATTTCTCTCTCATGAGCACTAACACCGTGGGACTTGGTTTGCCCATGTCCAGATCACAGCCATCGGTGCCGAGCAGCAAGTCCTCGGGGGACCTCGTTGACCTGTTTGATGGCAGTAGCCAGTCAGCAGGTGGATCAGCTGATTTATTTGGGGGATTTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-7b-5p(1), mmu-let-7b-5p(1), mmu-miR-7a-5p(1), mmu-miR-709(1), mmu-miR-320-3p(1), mmu-miR-370-3p(1), mmu-miR-324-3p(1), mmu-miR-27a-5p(1), mmu-miR-539-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GTCCAGATCACAGCCATCGGTGCCGA
siRNA sets
CACCGATGGCTGTGATCTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCLINT1_432_ORF_1
0.7763
0.188520528
0.690958842
534
ORF sequence:
ATGGGCTCATCCCAGGCAACCATGACGTCTTCCCAGAGCATGAATTTCTCTCTCATGAGCACTAACACCGTGGGACTTGGTTTGCCCATGTCCAGATCACAGCCATCGGTGCCGAGCAGCAAGTCCTCGGGGGACCTCGTTGACCTGTTTGATGGCAGTAGCCAGTCAGCAGGTGGATCAGCTGATTTATTTGGGGGATTTGCTGACTTTGGCTCAGCTGCTGCATCAGGCAATTTCCCTTCCCAAGCAACAAGTGGGAATGGTGACTTTGGTGACTGGAGTGCCTTCAACCAAGCCCCATCAGGCCCTGTGGCTTCTGGTGGTGAGCTCTTCGGCAGTGCCCCACAGTCGGCTGTGGAGCTTATCAGTGCTTCACAGCCAGCTTTAGGCCCACCGCCTGCTGCCTCAAACTCGGCAGACCTGTTTGATCTTATGGGCTCATCCCAGGCAACCATGACGTCTTCCCAGAGCATGAATTTCTCTCTCATGAGCACTAACACCGTGGGACTTGGTTTGCCCATGTCCAGATCACAG
Peptide sequence:
MGSSQATMTSSQSMNFSLMSTNTVGLGLPMSRSQPSVPSSKSSGDLVDLFDGSSQSAGGSADLFGGFADFGSAAASGNFPSQATSGNGDFGDWSAFNQAPSGPVASGGELFGSAPQSAVELISASQPALGPPPAASNSADLFDLMGSSQATMTSSQSMNFSLMSTNTVGLGLPMSRSQ
IRESfinder result
IRESfinder score
0.550725814
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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