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mmu_circAdgrb3_808
Basic information of circular RNA
PanCircBase ID:
mmu_circAdgrb3_808
mm39_Chr. Position ID:
chr1|25470503|25544095|-
Gene name:
Adgrb3
Transcript:
ENSMUST00000146592.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
13,12,11,10,9,8,7
Exon/intron offsets:
0,1004,25569,29320,56502,73010,73490
Genomic length:
73592
Exon/intron sizes in nt:
76,15,01,09,69,19,51,00,000
Flanking exon/introns:
chr1:25459741-25470503|chr1:25544095-25570950
Splice length:
808
Other database IDs:
CIRCpedia: MMU_CIRCpedia_38649, circAtlas: mmu-Bai3_0057
circBase: hsa_circ_0132102, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_146637
Human Ortholog IDs:
Mature spliced Sequence:
CACCTTATGAAATATGCCCAGAGGATTATCTTATATCAATGGTGTGGAAAAGGACTCCTGCAGGCGACCTGGCATTCAATCAATGTCCACTGAATGCCACAGGCACCACTAGCAGACGCTGCTCTCTCAGTCTTCATGGAGTGGCCTCCTGGGAACAGCCGAGCTTTGCAAGATGCATATCCAATGAGTACAGACACTTGCAGCATTCAATTAAAGAGCACCTTGCGAAGGGGCAGCGGATGCTGGCAGGTGATGGAATGTCCCAGGTCACCAAGACACTATTGGATTTAACCCAGAGGAAAAATTTCTATGCAGGTGACCTTCTGGTGTCTGTGGAAATCCTGAGAAATGTGACAGACACGTTTAAAAGGGCAAGTTACATCCCTGCGTCTGATGGGGTCCAGAACTTCTTTCAAATAGTTAGCAACCTTCTTGATGAAGAAAACAAGGAGAAATGGGAAGACGCACAACAGATTTACCCAGGCTCAATAGAGTTAATGCAGGTGATTGAAGATTTTATACACATTGTTGGAATGGGGATGATGGACTTTCAAAATTCATACCTAATGACTGGAAATGTAGTGGCGAGCATTCAGAAGCTCCCTGCTGCATCTGTTCTAACCGACATCAACTTCCCCATGAAAGGCCGGAAAGGAATGGTAGACTGGGCAAGAAATTCAGAAGATCGCGTTGTGATTCCAAAAAGCATTTTCACTCCCGTGTCTTCAAAAGAATTAGATGAATCATCTGTTTTTGTTCTTGGAGCGGTCCTATACAAAAACTTAGACCTAATTTTGCCTACTTTGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTTGTTCTTGGAGCGGTCCT
59.53
ATTGATTGAATGCCAGGTCGC
59.59
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTTTGTTCTTGGAGCGGTCCT
60.13
TTGATTGAATGCCAGGTCGC
59.19
140
PCR template sequence:
TTTTCACTCCCGTGTCTTCAAAAGAATTAGATGAATCATCTGTTTTTGTTCTTGGAGCGGTCCTATACAAAAACTTAGACCTAATTTTGCCTACTTTGAGCACCTTATGAAATATGCCCAGAGGATTATCTTATATCAATGGTGTGGAAAAGGACTCCTGCAGGCGACCTGGCATTCAATCAATGTCCACTGAATGCCAC
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
TGCCTACTTTGAGCACCTTATGAAAT
siRNA sets
TTCATAAGGTGCTCAAAGT, TTTCATAAGGTGCTCAAAG, TAAGGTGCTCAAAGTAGGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCADGRB3_808_ORF_1
0.8463
0.069041175
0.900602922
780
ORF sequence:
ATGGTGTGGAAAAGGACTCCTGCAGGCGACCTGGCATTCAATCAATGTCCACTGAATGCCACAGGCACCACTAGCAGACGCTGCTCTCTCAGTCTTCATGGAGTGGCCTCCTGGGAACAGCCGAGCTTTGCAAGATGCATATCCAATGAGTACAGACACTTGCAGCATTCAATTAAAGAGCACCTTGCGAAGGGGCAGCGGATGCTGGCAGGTGATGGAATGTCCCAGGTCACCAAGACACTATTGGATTTAACCCAGAGGAAAAATTTCTATGCAGGTGACCTTCTGGTGTCTGTGGAAATCCTGAGAAATGTGACAGACACGTTTAAAAGGGCAAGTTACATCCCTGCGTCTGATGGGGTCCAGAACTTCTTTCAAATAGTTAGCAACCTTCTTGATGAAGAAAACAAGGAGAAATGGGAAGACGCACAACAGATTTACCCAGGCTCAATAGAGTTAATGCAGGTGATTGAAGATTTTATACACATTGTTGGAATGGGGATGATGGACTTTCAAAATTCATACCTAATGACTGGAAATGTAGTGGCGAGCATTCAGAAGCTCCCTGCTGCATCTGTTCTAACCGACATCAACTTCCCCATGAAAGGCCGGAAAGGAATGGTAGACTGGGCAAGAAATTCAGAAGATCGCGTTGTGATTCCAAAAAGCATTTTCACTCCCGTGTCTTCAAAAGAATTAGATGAATCATCTGTTTTTGTTCTTGGAGCGGTCCTATACAAAAACTTAGACCTAATTTTGCCTACTTTGAGCACCTTATGA
Peptide sequence:
MVWKRTPAGDLAFNQCPLNATGTTSRRCSLSLHGVASWEQPSFARCISNEYRHLQHSIKEHLAKGQRMLAGDGMSQVTKTLLDLTQRKNFYAGDLLVSVEILRNVTDTFKRASYIPASDGVQNFFQIVSNLLDEENKEKWEDAQQIYPGSIELMQVIEDFIHIVGMGMMDFQNSYLMTGNVVASIQKLPAASVLTDINFPMKGRKGMVDWARNSEDRVVIPKSIFTPVSSKELDESSVFVLGAVLYKNLDLILPTLSTL
IRESfinder result
IRESfinder score
0.610374916
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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