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mmu_ciAgl_1369

Basic information of circular RNA
PanCircBase ID:

mmu_ciAgl_1369

mm39_Chr. Position ID:

chr3|116576732|116578101|-

Gene name:

Agl

Transcript:

ENSMUST00000040603.14

CircRNA type:

Circular intronic (ci)RNA

Exon/Intron count:

1

Exon/intron indexes:

12

Exon/intron offsets:

0

Genomic length:

1369

Exon/intron sizes in nt:

1369

Flanking exon/introns:

chr3:116576292-116578101

Splice length:

1369

Other database IDs:

Human Ortholog IDs:
Mature spliced Sequence:

GTACGGACACCTCTATTGACAAAGGCAGTGATACCTGTAGCCTCCAAAGTCCCTGCCAGTGTGCTGGCTGTACACTGCTGTGGATTTGGTAGAAGTACTGGCACATATGACAGCTTATCTAATTCTAACAACCTTCGGACATTCCGCTGTAAAATGTTTAATAAGTTAGTTTTTACATTTAGGAAAAAGGTCATATTTTTATGTAACAGCGTGCATAATAGGTGTTTATTGGTAATATGTAAAATGCTAAGTGGTCTTTTAGGTTGTTTCCAGTATAGATTGTTAGCAGTGTAACGTTGAATGGCTTTACAGTGTAGTGATGAGTCAGCTCTGGCTTCCGTTTCACTTTAGGGGTACTTGGAACAGTGCACATTTTAGGACCGGTCTGTTCTATACTGAGCTGCACTCCTAGCCCTTGCAGTAAATAGTCAAACTCTAGTACTCTGACATCCTGAGGCTAGTTTAAACCTCACTGAGTCCTGTTTAATCAGTCATCTTTAGAAACATTAAGTGTAAGCTAACCATAATTTGTACTTTGGGCTTTTATTTGAATAATGTCAGTATTGCTGCATTTTTCTTACCTACTACAACTTCCTAAAAACACATAATTTTATCCTAGTTGTAAGATCTTTGGTAGTTTTTAAATGACAATTTATGAAAATATGTGCTCATAAACCCAGTTTAGTGAATCAAGGCTTTAATCCCACCATTCAGGAGGCAGAGGCAGATGAACAACTCTGTGAGTTTAGGCCAGCCTCATCTATATAGTGAGTTCCATGAGCAGACATAGTCAACATATCTCAAAACAAAACAAAAAAGGTGCGAGGGATGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATATCAGCTTCTAGAGTTTATGTGCTGTATGTGTCTGTGTGAGTGTGTGTGTGTGAGAGAGAGAGGAAGAGAGAGAGAGAGATTCCATATGTCCATATAGCTTTAATTTGGGGGATTTGATAGAAAACCTTAGCTAAGCTAGCAGAGCATTATTTACCTTCAGTAATAAGCAGAGGGTCCTTTTCAGTTATGCTTTTGACAATAGTAAAAAAAAACATATTTATAACATTATAGAAAAGTGAATTTTAAACAGCAAAGTCCTCTATAATTCTACTTCTTAGCTGATAAAAATTATAGGCATTTTACTAACCTATGTGTAAGAATTCCTTCTAGAATGGAATTGGAAACAATCTGATTATTAGACACTATTTTCTGTTTCTCTGGTAAATCATTAACACCAGTGTTACACCTGCATCTCACACACACACACACAGACACACACACAGACACACACAGACACACACTCACACACACACACCACACACACACAGAAATGGGAAGGTACTG

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

ACCTGCATCTCACACACACA

59.53

GGGACTTTGGAGGCTACAGG

59.75

153

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

ACCTGCATCTCACACACACA

59.53

GCAGGGACTTTGGAGGCTAC

60.39

156

PCR template sequence:

ACCTGCATCTCACACACACACACACAGACACACACACAGACACACACAGACACACACTCACACACACACACCACACACACACAGAAATGGGAAGGTACTGGTACGGACACCTCTATTGACAAAGGCAGTGATACCTGTAGCCTCCAAAGTCCCTGCCAGTGTGCTGGCTGTACACTGCTGTGGATTTGGTAGAAGTACTG

Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs

18

Interacting miRNAs (#binding sites)

mmu-miR-134-5p(1), mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-20a-5p(1), mmu-miR-1a-3p(1), mmu-miR-206-3p(1), mmu-miR-200b-3p(1), mmu-miR-335-5p(1), mmu-miR-191-5p(1), mmu-miR-466d-3p(1), mmu-miR-342-3p(1), mmu-miR-377-3p(1), mmu-miR-1187(1), mmu-miR-190b-5p(1), mmu-miR-335-3p(1), mmu-miR-3087-3p(1), mmu-miR-466b-3p(1), mmu-miR-574-5p(1)

siRNAs for circular RNA silencing
Junction sequence

TGGGAAGGTACTGGTACGGACACCTC

siRNA sets

TCCGTACCAGTACCTTCCC, GTCCGTACCAGTACCTTCC, TGTCCGTACCAGTACCTTC

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

NA

NA

NA

NA

NA

ORF sequence:

NA

Peptide sequence:

NA

IRESfinder result

IRESfinder score

0.847845593

IRES/non IRES

IRES

riboCIRC information

riboCIRC ID

NA

NA

Evidence
Peptide sequence:

NA

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