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mmu_circAdgrb3_911
Basic information of circular RNA
PanCircBase ID:
mmu_circAdgrb3_911
mm39_Chr. Position ID:
chr1|25459638|25544095|-
Gene name:
Adgrb3
Transcript:
ENSMUST00000146592.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
14,13,12,11,10,9,8,7
Exon/intron offsets:
0,10865,11869,36434,40185,67367,83875,84355
Genomic length:
84457
Exon/intron sizes in nt:
1,03,76,15,01,09,69,19,00,00,000
Flanking exon/introns:
chr1:25435560-25459638|chr1:25544095-25570950
Splice length:
911
Other database IDs:
CIRCpedia: MMU_CIRCpedia_220552, circAtlas: mmu-Bai3_0029
circBase: hsa_circ_0076942, circAtlas: hsa-ADGRB3_0025, CIRCpedia: HSA_CIRCpedia_123068
Human Ortholog IDs:
Mature spliced Sequence:
CACCTTATGAAATATGCCCAGAGGATTATCTTATATCAATGGTGTGGAAAAGGACTCCTGCAGGCGACCTGGCATTCAATCAATGTCCACTGAATGCCACAGGCACCACTAGCAGACGCTGCTCTCTCAGTCTTCATGGAGTGGCCTCCTGGGAACAGCCGAGCTTTGCAAGATGCATATCCAATGAGTACAGACACTTGCAGCATTCAATTAAAGAGCACCTTGCGAAGGGGCAGCGGATGCTGGCAGGTGATGGAATGTCCCAGGTCACCAAGACACTATTGGATTTAACCCAGAGGAAAAATTTCTATGCAGGTGACCTTCTGGTGTCTGTGGAAATCCTGAGAAATGTGACAGACACGTTTAAAAGGGCAAGTTACATCCCTGCGTCTGATGGGGTCCAGAACTTCTTTCAAATAGTTAGCAACCTTCTTGATGAAGAAAACAAGGAGAAATGGGAAGACGCACAACAGATTTACCCAGGCTCAATAGAGTTAATGCAGGTGATTGAAGATTTTATACACATTGTTGGAATGGGGATGATGGACTTTCAAAATTCATACCTAATGACTGGAAATGTAGTGGCGAGCATTCAGAAGCTCCCTGCTGCATCTGTTCTAACCGACATCAACTTCCCCATGAAAGGCCGGAAAGGAATGGTAGACTGGGCAAGAAATTCAGAAGATCGCGTTGTGATTCCAAAAAGCATTTTCACTCCCGTGTCTTCAAAAGAATTAGATGAATCATCTGTTTTTGTTCTTGGAGCGGTCCTATACAAAAACTTAGACCTAATTTTGCCTACTTTGAGAAATTACACTGTCGTCAATTCTAAAGTCATCGTGGTCACAATCAGGCCTGAACCTAAAACAACTGACTCATTTTTGGAGATAGAGCTAGCTCACTTGGCAAAT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTGGTCACAATCAGGCCTGA
59.96
GATTGAATGCCAGGTCGCCT
60.75
153
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTGGTCACAATCAGGCCTGA
59.96
TTGATTGAATGCCAGGTCGC
59.19
155
PCR template sequence:
TTACACTGTCGTCAATTCTAAAGTCATCGTGGTCACAATCAGGCCTGAACCTAAAACAACTGACTCATTTTTGGAGATAGAGCTAGCTCACTTGGCAAATCACCTTATGAAATATGCCCAGAGGATTATCTTATATCAATGGTGTGGAAAAGGACTCCTGCAGGCGACCTGGCATTCAATCAATGTCCACTGAATGCCAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-23b-3p(1), mmu-miR-335-5p(1), mmu-miR-23a-3p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TCACTTGGCAAATCACCTTATGAAAT
siRNA sets
TTTCATAAGGTGATTTGCC, ATTTCATAAGGTGATTTGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCADGRB3_911_ORF_1
0.8417
0.060772383
0.970659426
966
ORF sequence:
ATGGTGTGGAAAAGGACTCCTGCAGGCGACCTGGCATTCAATCAATGTCCACTGAATGCCACAGGCACCACTAGCAGACGCTGCTCTCTCAGTCTTCATGGAGTGGCCTCCTGGGAACAGCCGAGCTTTGCAAGATGCATATCCAATGAGTACAGACACTTGCAGCATTCAATTAAAGAGCACCTTGCGAAGGGGCAGCGGATGCTGGCAGGTGATGGAATGTCCCAGGTCACCAAGACACTATTGGATTTAACCCAGAGGAAAAATTTCTATGCAGGTGACCTTCTGGTGTCTGTGGAAATCCTGAGAAATGTGACAGACACGTTTAAAAGGGCAAGTTACATCCCTGCGTCTGATGGGGTCCAGAACTTCTTTCAAATAGTTAGCAACCTTCTTGATGAAGAAAACAAGGAGAAATGGGAAGACGCACAACAGATTTACCCAGGCTCAATAGAGTTAATGCAGGTGATTGAAGATTTTATACACATTGTTGGAATGGGGATGATGGACTTTCAAAATTCATACCTAATGACTGGAAATGTAGTGGCGAGCATTCAGAAGCTCCCTGCTGCATCTGTTCTAACCGACATCAACTTCCCCATGAAAGGCCGGAAAGGAATGGTAGACTGGGCAAGAAATTCAGAAGATCGCGTTGTGATTCCAAAAAGCATTTTCACTCCCGTGTCTTCAAAAGAATTAGATGAATCATCTGTTTTTGTTCTTGGAGCGGTCCTATACAAAAACTTAGACCTAATTTTGCCTACTTTGAGAAATTACACTGTCGTCAATTCTAAAGTCATCGTGGTCACAATCAGGCCTGAACCTAAAACAACTGACTCATTTTTGGAGATAGAGCTAGCTCACTTGGCAAATCACCTTATGAAATATGCCCAGAGGATTATCTTATATCAATGGTGTGGAAAAGGACTCCTGCAGGCGACCTGGCATTCAATCAATGTCCACTGA
Peptide sequence:
MVWKRTPAGDLAFNQCPLNATGTTSRRCSLSLHGVASWEQPSFARCISNEYRHLQHSIKEHLAKGQRMLAGDGMSQVTKTLLDLTQRKNFYAGDLLVSVEILRNVTDTFKRASYIPASDGVQNFFQIVSNLLDEENKEKWEDAQQIYPGSIELMQVIEDFIHIVGMGMMDFQNSYLMTGNVVASIQKLPAASVLTDINFPMKGRKGMVDWARNSEDRVVIPKSIFTPVSSKELDESSVFVLGAVLYKNLDLILPTLRNYTVVNSKVIVVTIRPEPKTTDSFLEIELAHLANHLMKYAQRIILYQWCGKGLLQATWHSINVH
IRESfinder result
IRESfinder score
0.629517321
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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