top of page
mmu_circAdgrb3_1679
Basic information of circular RNA
PanCircBase ID:
mmu_circAdgrb3_1679
mm39_Chr. Position ID:
chr1|25459638|25598946|-
Gene name:
Adgrb3
Transcript:
ENSMUST00000146592.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
13
Exon/intron indexes:
14,13,12,11,10,9,8,7,6,5,4,3,2
Exon/intron offsets:
0,10865,11869,36434,40185,67367,83875,84355,111312,111917,126858,133117,139197
Genomic length:
139308
Exon/intron sizes in nt:
10,37,61,50,10,96,91,90,00,00,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr1:25435560-25459638|chr1:25598946-25865084
Splice length:
1679
Other database IDs:
CIRCpedia: MMU_CIRCpedia_14523, circAtlas: mmu-Bai3_0020
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_158246
Human Ortholog IDs:
Mature spliced Sequence:
AATTTGGAATGATGGGAGATCATACAATTAAAAGTCAGCGACCTCGATCTGTCCATGAGAAAAGGGTCCCTCAGGAACAAGCTGATGCTGCTAAATTTATGGCACAAACTGGTGAATCTGGTGTGGAAGAGTGGTCCCAGTGGAGCGCATGCTCAGTTACTTGTGGTCAAGGGTCGCAGGTGCGAACCAGAACTTGTGTATCACCTTACGGGACACACTGCAGCGGCCCATTAAGAGAATCAAGGGTTTGCAATAACACTGCCCTCTGTCCAGTACATGGAGTTTGGGAGGAATGGTCACCTTGGAGCTTATGCTCCTTCACATGTGGCCGAGGCCAAAGAACACGAACCAGGTCATGCACACCTCCTCAGTATGGAGGAAGGCCCTGTGAGGGACCTGAAACTCATCACAAGCCTTGTAATATTGCCCTCTGTCCAGTTGACGGACAGTGGCAGGAATGGAGTTCATGGAGCCACTGCTCAGTGACATGTTCTAATGGGACACAGCAGAGGAGTCGGCAGTGCACAGCAGCTGCTCATGGAGGCTCTGAGTGCCGAGGACCATGGGCTGAAAGCAGGGAGTGCTACAACCCTGAATGTACAGCCAATGGTCAGTGGAATCAGTGGGGTCACTGGAGTGGATGTTCCAAGTCCTGTGATGGTGGCTGGGAGAGGAGAATGAGGACTTGTCAGGGCGCAGCTGTAACAGGACAGCAGTGTGAAGGCACAGGTGAAGAGGTACGAAGATGCAGTGAGCAGCGGTGCCCAGCACCTTATGAAATATGCCCAGAGGATTATCTTATATCAATGGTGTGGAAAAGGACTCCTGCAGGCGACCTGGCATTCAATCAATGTCCACTGAATGCCACAGGCACCACTAGCAGACGCTGCTCTCTCAGTCTTCATGGAGTGGCCTCCTGGGAACAGCCGAGCTTTGCAAGATGCATATCCAATGAGTACAGACACTTGCAGCATTCAATTAAAGAGCACCTTGCGAAGGGGCAGCGGATGCTGGCAGGTGATGGAATGTCCCAGGTCACCAAGACACTATTGGATTTAACCCAGAGGAAAAATTTCTATGCAGGTGACCTTCTGGTGTCTGTGGAAATCCTGAGAAATGTGACAGACACGTTTAAAAGGGCAAGTTACATCCCTGCGTCTGATGGGGTCCAGAACTTCTTTCAAATAGTTAGCAACCTTCTTGATGAAGAAAACAAGGAGAAATGGGAAGACGCACAACAGATTTACCCAGGCTCAATAGAGTTAATGCAGGTGATTGAAGATTTTATACACATTGTTGGAATGGGGATGATGGACTTTCAAAATTCATACCTAATGACTGGAAATGTAGTGGCGAGCATTCAGAAGCTCCCTGCTGCATCTGTTCTAACCGACATCAACTTCCCCATGAAAGGCCGGAAAGGAATGGTAGACTGGGCAAGAAATTCAGAAGATCGCGTTGTGATTCCAAAAAGCATTTTCACTCCCGTGTCTTCAAAAGAATTAGATGAATCATCTGTTTTTGTTCTTGGAGCGGTCCTATACAAAAACTTAGACCTAATTTTGCCTACTTTGAGAAATTACACTGTCGTCAATTCTAAAGTCATCGTGGTCACAATCAGGCCTGAACCTAAAACAACTGACTCATTTTTGGAGATAGAGCTAGCTCACTTGGCAAAT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTGGTCACAATCAGGCCTGA
59.96
CAGCTTGTTCCTGAGGGACC
60.32
156
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATCGTGGTCACAATCAGGCC
60.39
CAGCTTGTTCCTGAGGGACC
60.32
159
PCR template sequence:
TTACACTGTCGTCAATTCTAAAGTCATCGTGGTCACAATCAGGCCTGAACCTAAAACAACTGACTCATTTTTGGAGATAGAGCTAGCTCACTTGGCAAATAATTTGGAATGATGGGAGATCATACAATTAAAAGTCAGCGACCTCGATCTGTCCATGAGAAAAGGGTCCCTCAGGAACAAGCTGATGCTGCTAAATTTAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
16
Interacting miRNAs (#binding sites)
mmu-miR-23b-3p(1), mmu-miR-181a-5p(1), mmu-miR-150-5p(1), mmu-miR-34c-5p(1), mmu-miR-34a-5p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-335-5p(1), mmu-miR-23a-3p(1), mmu-miR-181b-5p(1), mmu-miR-149-5p(1), mmu-miR-136-5p(1), mmu-miR-351-5p(1), mmu-miR-34b-5p(1), mmu-miR-338-3p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TCACTTGGCAAATAATTTGGAATGAT
siRNA sets
ATCATTCCAAATTATTTGC, TCATTCCAAATTATTTGCC, CAAATTATTTGCCAAGTGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCADGRB3_1679_ORF_1
0.574
0.022425885
0.999658764
1683
ORF sequence:
ATGATGGGAGATCATACAATTAAAAGTCAGCGACCTCGATCTGTCCATGAGAAAAGGGTCCCTCAGGAACAAGCTGATGCTGCTAAATTTATGGCACAAACTGGTGAATCTGGTGTGGAAGAGTGGTCCCAGTGGAGCGCATGCTCAGTTACTTGTGGTCAAGGGTCGCAGGTGCGAACCAGAACTTGTGTATCACCTTACGGGACACACTGCAGCGGCCCATTAAGAGAATCAAGGGTTTGCAATAACACTGCCCTCTGTCCAGTACATGGAGTTTGGGAGGAATGGTCACCTTGGAGCTTATGCTCCTTCACATGTGGCCGAGGCCAAAGAACACGAACCAGGTCATGCACACCTCCTCAGTATGGAGGAAGGCCCTGTGAGGGACCTGAAACTCATCACAAGCCTTGTAATATTGCCCTCTGTCCAGTTGACGGACAGTGGCAGGAATGGAGTTCATGGAGCCACTGCTCAGTGACATGTTCTAATGGGACACAGCAGAGGAGTCGGCAGTGCACAGCAGCTGCTCATGGAGGCTCTGAGTGCCGAGGACCATGGGCTGAAAGCAGGGAGTGCTACAACCCTGAATGTACAGCCAATGGTCAGTGGAATCAGTGGGGTCACTGGAGTGGATGTTCCAAGTCCTGTGATGGTGGCTGGGAGAGGAGAATGAGGACTTGTCAGGGCGCAGCTGTAACAGGACAGCAGTGTGAAGGCACAGGTGAAGAGGTACGAAGATGCAGTGAGCAGCGGTGCCCAGCACCTTATGAAATATGCCCAGAGGATTATCTTATATCAATGGTGTGGAAAAGGACTCCTGCAGGCGACCTGGCATTCAATCAATGTCCACTGAATGCCACAGGCACCACTAGCAGACGCTGCTCTCTCAGTCTTCATGGAGTGGCCTCCTGGGAACAGCCGAGCTTTGCAAGATGCATATCCAATGAGTACAGACACTTGCAGCATTCAATTAAAGAGCACCTTGCGAAGGGGCAGCGGATGCTGGCAGGTGATGGAATGTCCCAGGTCACCAAGACACTATTGGATTTAACCCAGAGGAAAAATTTCTATGCAGGTGACCTTCTGGTGTCTGTGGAAATCCTGAGAAATGTGACAGACACGTTTAAAAGGGCAAGTTACATCCCTGCGTCTGATGGGGTCCAGAACTTCTTTCAAATAGTTAGCAACCTTCTTGATGAAGAAAACAAGGAGAAATGGGAAGACGCACAACAGATTTACCCAGGCTCAATAGAGTTAATGCAGGTGATTGAAGATTTTATACACATTGTTGGAATGGGGATGATGGACTTTCAAAATTCATACCTAATGACTGGAAATGTAGTGGCGAGCATTCAGAAGCTCCCTGCTGCATCTGTTCTAACCGACATCAACTTCCCCATGAAAGGCCGGAAAGGAATGGTAGACTGGGCAAGAAATTCAGAAGATCGCGTTGTGATTCCAAAAAGCATTTTCACTCCCGTGTCTTCAAAAGAATTAGATGAATCATCTGTTTTTGTTCTTGGAGCGGTCCTATACAAAAACTTAGACCTAATTTTGCCTACTTTGAGAAATTACACTGTCGTCAATTCTAAAGTCATCGTGGTCACAATCAGGCCTGAACCTAAAACAACTGACTCATTTTTGGAGATAGAGCTAGCTCACTTGGCAAATAATTTGGAATGA
Peptide sequence:
MMGDHTIKSQRPRSVHEKRVPQEQADAAKFMAQTGESGVEEWSQWSACSVTCGQGSQVRTRTCVSPYGTHCSGPLRESRVCNNTALCPVHGVWEEWSPWSLCSFTCGRGQRTRTRSCTPPQYGGRPCEGPETHHKPCNIALCPVDGQWQEWSSWSHCSVTCSNGTQQRSRQCTAAAHGGSECRGPWAESRECYNPECTANGQWNQWGHWSGCSKSCDGGWERRMRTCQGAAVTGQQCEGTGEEVRRCSEQRCPAPYEICPEDYLISMVWKRTPAGDLAFNQCPLNATGTTSRRCSLSLHGVASWEQPSFARCISNEYRHLQHSIKEHLAKGQRMLAGDGMSQVTKTLLDLTQRKNFYAGDLLVSVEILRNVTDTFKRASYIPASDGVQNFFQIVSNLLDEENKEKWEDAQQIYPGSIELMQVIEDFIHIVGMGMMDFQNSYLMTGNVVASIQKLPAASVLTDINFPMKGRKGMVDWARNSEDRVVIPKSIFTPVSSKELDESSVFVLGAVLYKNLDLILPTLRNYTVVNSKVIVVTIRPEPKTTDSFLEIELAHLANNLE
IRESfinder result
IRESfinder score
0.543360595
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page