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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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