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mmu_circEif4b_639

Basic information of circular RNA
PanCircBase ID:

mmu_circEif4b_639

mm39_Chr. Position ID:

chr15|101997050|101999929|+

Gene name:

Eif4b

Transcript:

ENSMUST00000169681.3

CircRNA type:

Exonic circular (circ)RNA

Exon/Intron count:

4

Exon/intron indexes:

7,8,9,10

Exon/intron offsets:

0,241,1250,2781

Genomic length:

2879

Exon/intron sizes in nt:

138,174,229,98

Flanking exon/introns:

chr15:101995074-101997050|chr15:101999929-102001420

Splice length:

639

Other database IDs:

CIRCpedia: MMU_CIRCpedia_646

circBase: hsa_circ_0026523, CIRCpedia: HSA_CIRCpedia_176706

Human Ortholog IDs:
Mature spliced Sequence:

AGTATCGAGATCGTTACGATTCAGACCGGTATCGGGATGGGTATAGGGACGGATATCGGGACGGCCCACGCAGAGACATGGACCGCTATGGGGGCCGGGATCGCTATGATGACCGAGGCAGCAGAGACTATGACCGAGGCTATGACTCCAGGATAGGCAGTGGCAGAAGGGCATTTGGAAGTGGGTACCGGAGAGATGATGACTACAGAGGAGGTGGGGACCGCTATGAAGACCGCTATGACAGACGGGATGATCGGTCGTGGAGCTCCAGGGATGACTACTCTCGGGATGATTATAGGCGTGATGACAGAGGTCCCCCCCAGAGACCCAGACTGAACCTCAAGCCTCGAAGCGCTCCTAAGGAGGATGACGCCTCCGCCAGCACCTCCCAGTCCAGCCGGGCAGCCTCCATCTTTGGAGGGGCGAAGCCTGTTGACACAGCTGCTAGGGAAAGAGAAGTAGAGGAGCGGCTACAGAAGGAGCAGGAGAAGCTGCAGCGTCAGCTGGATGAGCCAAAACTAGACCGCCGGCCCCGGGAGAGACACCCAAGCTGGCGAAGTGAAGAAACTCAGGAAAGAGAACGGTCAAGGACAGGAAGTGAGTCATCGCAGACTGGGGCCTCAGCCACATCTGGCAGAA

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

ACGGTCAAGGACAGGAAGTG

59.61

CCCATAGCGGTCCATGTCTC

59.97

151

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

CGGTCAAGGACAGGAAGTGA

59.32

CCCATAGCGGTCCATGTCTC

59.97

150

PCR template sequence:

AGACACCCAAGCTGGCGAAGTGAAGAAACTCAGGAAAGAGAACGGTCAAGGACAGGAAGTGAGTCATCGCAGACTGGGGCCTCAGCCACATCTGGCAGAAAGTATCGAGATCGTTACGATTCAGACCGGTATCGGGATGGGTATAGGGACGGATATCGGGACGGCCCACGCAGAGACATGGACCGCTATGGGGGCCGGGA

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-207(1), mmu-miR-3087-3p(1), mmu-miR-1904(1)

siRNAs for circular RNA silencing
Junction sequence

ACATCTGGCAGAAAGTATCGAGATCG

siRNA sets

GATCTCGATACTTTCTGCC, ATCTCGATACTTTCTGCCA, CGATCTCGATACTTTCTGC

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

CIRCEIF4B_639_ORF_1

0.9947

0.463104548

0.999199773

1200

ORF sequence:

ATGGACCGCTATGGGGGCCGGGATCGCTATGATGACCGAGGCAGCAGAGACTATGACCGAGGCTATGACTCCAGGATAGGCAGTGGCAGAAGGGCATTTGGAAGTGGGTACCGGAGAGATGATGACTACAGAGGAGGTGGGGACCGCTATGAAGACCGCTATGACAGACGGGATGATCGGTCGTGGAGCTCCAGGGATGACTACTCTCGGGATGATTATAGGCGTGATGACAGAGGTCCCCCCCAGAGACCCAGACTGAACCTCAAGCCTCGAAGCGCTCCTAAGGAGGATGACGCCTCCGCCAGCACCTCCCAGTCCAGCCGGGCAGCCTCCATCTTTGGAGGGGCGAAGCCTGTTGACACAGCTGCTAGGGAAAGAGAAGTAGAGGAGCGGCTACAGAAGGAGCAGGAGAAGCTGCAGCGTCAGCTGGATGAGCCAAAACTAGACCGCCGGCCCCGGGAGAGACACCCAAGCTGGCGAAGTGAAGAAACTCAGGAAAGAGAACGGTCAAGGACAGGAAGTGAGTCATCGCAGACTGGGGCCTCAGCCACATCTGGCAGAAAGTATCGAGATCGTTACGATTCAGACCGGTATCGGGATGGGTATAGGGACGGATATCGGGACGGCCCACGCAGAGACATGGACCGCTATGGGGGCCGGGATCGCTATGATGACCGAGGCAGCAGAGACTATGACCGAGGCTATGACTCCAGGATAGGCAGTGGCAGAAGGGCATTTGGAAGTGGGTACCGGAGAGATGATGACTACAGAGGAGGTGGGGACCGCTATGAAGACCGCTATGACAGACGGGATGATCGGTCGTGGAGCTCCAGGGATGACTACTCTCGGGATGATTATAGGCGTGATGACAGAGGTCCCCCCCAGAGACCCAGACTGAACCTCAAGCCTCGAAGCGCTCCTAAGGAGGATGACGCCTCCGCCAGCACCTCCCAGTCCAGCCGGGCAGCCTCCATCTTTGGAGGGGCGAAGCCTGTTGACACAGCTGCTAGGGAAAGAGAAGTAGAGGAGCGGCTACAGAAGGAGCAGGAGAAGCTGCAGCGTCAGCTGGATGAGCCAAAACTAGACCGCCGGCCCCGGGAGAGACACCCAAGCTGGCGAAGTGAAGAAACTCAGGAAAGAGAACGGTCAAGGACAGGAAGTGAGTCATCGCAGACTGGGGCCTCAGCCACATCTGGCAGA

Peptide sequence:

MDRYGGRDRYDDRGSRDYDRGYDSRIGSGRRAFGSGYRRDDDYRGGGDRYEDRYDRRDDRSWSSRDDYSRDDYRRDDRGPPQRPRLNLKPRSAPKEDDASASTSQSSRAASIFGGAKPVDTAAREREVEERLQKEQEKLQRQLDEPKLDRRPRERHPSWRSEETQERERSRTGSESSQTGASATSGRKYRDRYDSDRYRDGYRDGYRDGPRRDMDRYGGRDRYDDRGSRDYDRGYDSRIGSGRRAFGSGYRRDDDYRGGGDRYEDRYDRRDDRSWSSRDDYSRDDYRRDDRGPPQRPRLNLKPRSAPKEDDASASTSQSSRAASIFGGAKPVDTAAREREVEERLQKEQEKLQRQLDEPKLDRRPRERHPSWRSEETQERERSRTGSESSQTGASATSGR

IRESfinder result

IRESfinder score

0.084187476

IRES/non IRES

non-IRES

riboCIRC information

riboCIRC ID

NA

NA

Evidence
Peptide sequence:

NA

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Institute of Life sciences, Bhubaneswar, India

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