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mmu_circAsh2l_394

Basic information of circular RNA
PanCircBase ID:

mmu_circAsh2l_394

mm39_Chr. Position ID:

chr8|26324987|26330103|-

Gene name:

Ash2l

Transcript:

ENSMUST00000068892.15

CircRNA type:

Exonic circular (circ)RNA

Exon/Intron count:

4

Exon/intron indexes:

5,4,3,2

Exon/intron offsets:

0,1040,4783,5052

Genomic length:

5116

Exon/intron sizes in nt:

95,89,146,64

Flanking exon/introns:

chr8:26323874-26324987|chr8:26330103-26330609

Splice length:

394

Other database IDs:

circAtlas: hsa-ASH2L_0055

Human Ortholog IDs:
Mature spliced Sequence:

GGATGCAAACTTGGTTGATGTAAGTGGTCTGGAGACAGAATCTTCTAATGGAAAAGATACTTTGGAAGGTACCGGAGACACTTCAGAAGTGATGGATACCCAGGCGGGCTCTGTGGATGAGGAGAATGGGCGGCAGTTGGGAGAAGTGGAGTTGCAGTGTGGGATATGTACAAAATGGTTCACCGCTGACACCTTTGGAATAGACACGTCGTCATGTCTGCCTTTTATGACCAACTACAGCTTCCATTGCAATGTGTGCCATCACAGTGGGAATACCTACTTTCTCCGGAAGCAAGCAAATTTAAAAGAAATGTGCCTTAGTGCCTTGGCGAATTTGACGTGGCAGTCTCGAACACAGGATGAACATCCAAAAACCATGTTCTCCAAAGATAAG

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

TTTGACGTGGCAGTCTCGAA

59.9

AGTGTCTCCGGTACCTTCCA

59.89

143

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

CCTTGGCGAATTTGACGTGG

60.11

AGTGTCTCCGGTACCTTCCA

59.89

153

PCR template sequence:

AGCAAATTTAAAAGAAATGTGCCTTAGTGCCTTGGCGAATTTGACGTGGCAGTCTCGAACACAGGATGAACATCCAAAAACCATGTTCTCCAAAGATAAGGGATGCAAACTTGGTTGATGTAAGTGGTCTGGAGACAGAATCTTCTAATGGAAAAGATACTTTGGAAGGTACCGGAGACACTTCAGAAGTGATGGATACC

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

3

Interacting miRNAs (#binding sites)

mmu-miR-150-5p(1), mmu-miR-207(1), mmu-miR-188-3p(1)

siRNAs for circular RNA silencing
Junction sequence

CTCCAAAGATAAGGGATGCAAACTTG

siRNA sets

AAGTTTGCATCCCTTATCT, TTTGCATCCCTTATCTTTG, TTGCATCCCTTATCTTTGG

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

CIRCASH2L_394_ORF_1

0.7594

0.141504413

0.456364152

429

ORF sequence:

ATGAACATCCAAAAACCATGTTCTCCAAAGATAAGGGATGCAAACTTGGTTGATGTAAGTGGTCTGGAGACAGAATCTTCTAATGGAAAAGATACTTTGGAAGGTACCGGAGACACTTCAGAAGTGATGGATACCCAGGCGGGCTCTGTGGATGAGGAGAATGGGCGGCAGTTGGGAGAAGTGGAGTTGCAGTGTGGGATATGTACAAAATGGTTCACCGCTGACACCTTTGGAATAGACACGTCGTCATGTCTGCCTTTTATGACCAACTACAGCTTCCATTGCAATGTGTGCCATCACAGTGGGAATACCTACTTTCTCCGGAAGCAAGCAAATTTAAAAGAAATGTGCCTTAGTGCCTTGGCGAATTTGACGTGGCAGTCTCGAACACAGGATGAACATCCAAAAACCATGTTCTCCAAAGATAAG

Peptide sequence:

MNIQKPCSPKIRDANLVDVSGLETESSNGKDTLEGTGDTSEVMDTQAGSVDEENGRQLGEVELQCGICTKWFTADTFGIDTSSCLPFMTNYSFHCNVCHHSGNTYFLRKQANLKEMCLSALANLTWQSRTQDEHPKTMFSKDK

IRESfinder result

IRESfinder score

0.435572913

IRES/non IRES

non-IRES

riboCIRC information

riboCIRC ID

NA

NA

Evidence
Peptide sequence:

NA

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