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mmu_ciCrocc_282
Basic information of circular RNA
PanCircBase ID:
mmu_ciCrocc_282
mm39_Chr. Position ID:
chr4|140762715|140762997|-
Gene name:
Crocc
Transcript:
ENSMUST00000102491.10
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
16
Exon/intron offsets:
0
Genomic length:
282
Exon/intron sizes in nt:
282
Flanking exon/introns:
chr4:140762694-140762997
Splice length:
282
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTATGCTGTATACCAGCGCGAGGTCCCCTCCACCAGGGAGACACTGTAGAGACATGCTGGGCTCACCGCCCCCCCCCCTGTCTGTCCTGCTGTCCATCTTTCATCCTGACTGCCTTTCTGTGTTTCATAGAAGGATGCTCTGGGGGCCCTGCTCTATTCTGGTGCTTGGTTCTCAACCCTGTGGACACCCTTCCTTCTCCCTTGCGTGCCATCCCTGACTGGCTGTGATCGTTGGTAGGATGAAGGAAGGGACATCCCGGTCCTGGGAGAGTCCCTTTGCTC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCTGACTGGCTGTGATCGTT
60.04
GATGGACAGCAGGACAGACA
59.39
167
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCTGACTGGCTGTGATCGTT
60.04
ATGGACAGCAGGACAGACAG
59.39
166
PCR template sequence:
GGACACCCTTCCTTCTCCCTTGCGTGCCATCCCTGACTGGCTGTGATCGTTGGTAGGATGAAGGAAGGGACATCCCGGTCCTGGGAGAGTCCCTTTGCTCGTATGCTGTATACCAGCGCGAGGTCCCCTCCACCAGGGAGACACTGTAGAGACATGCTGGGCTCACCGCCCCCCCCCCTGTCTGTCCTGCTGTCCATCTT
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-296-5p(1), mmu-miR-205-5p(1), mmu-miR-204-5p(1), mmu-miR-214-3p(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGTCCCTTTGCTCGTATGCTGTATAC
siRNA sets
ATACAGCATACGAGCAAAG, TACAGCATACGAGCAAAGG, ACAGCATACGAGCAAAGGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CICROCC_282_ORF_1
0.7025
-0.110042517
0.074718568
261
ORF sequence:
ATGAAGGAAGGGACATCCCGGTCCTGGGAGAGTCCCTTTGCTCGTATGCTGTATACCAGCGCGAGGTCCCCTCCACCAGGGAGACACTGTAGAGACATGCTGGGCTCACCGCCCCCCCCCCTGTCTGTCCTGCTGTCCATCTTTCATCCTGACTGCCTTTCTGTGTTTCATAGAAGGATGCTCTGGGGGCCCTGCTCTATTCTGGTGCTTGGTTCTCAACCCTGTGGACACCCTTCCTTCTCCCTTGCGTGCCATCCCTGA
Peptide sequence:
MKEGTSRSWESPFARMLYTSARSPPPGRHCRDMLGSPPPPLSVLLSIFHPDCLSVFHRRMLWGPCSILVLGSQPCGHPSFSLACHP
IRESfinder result
IRESfinder score
0.709306669
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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