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mmu_circIftap_297

Basic information of circular RNA
PanCircBase ID:

mmu_circIftap_297

mm39_Chr. Position ID:

chr2|101413865|101416814|-

Gene name:

Iftap

Transcript:

ENSMUST00000111231.10

CircRNA type:

Exonic circular (circ)RNA

Exon/Intron count:

3

Exon/intron indexes:

5,4,3

Exon/intron offsets:

0,1723,2791

Genomic length:

2949

Exon/intron sizes in nt:

67,72,158

Flanking exon/introns:

chr2:101406496-101413865|chr2:101416814-101440868

Splice length:

297

Other database IDs:

circAtlas: mmu-B230118H07Rik_0003

circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_4269

Human Ortholog IDs:
Mature spliced Sequence:

AGGATAATGTGGCCAAATGGGGAGCACATGGAACTGATTCATCAGAAAATATATTTTCTACTGTAAAATGGAATCATAAAACTGAATCAAATGGTCGTCATTTTAGAAATACATCCATCTTTCTTCACACTTCATCGGAACACTCAGAAGAGGACCAGATTGTGATTGATGAAGGCCACAAAGTTGGGAGTTCCTTTCAAGGTGATATGACCCGGGCTGGAAAGGTGAAGGTAGACAACTTCCTAGACTTAGAAGATGTGGACATGGAGGAAGAGAGTAAGCCCCAGATGAACAAGG

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

CAAGGTGATATGACCCGGGC

60.54

GAATCAGTTCCATGTGCTCCC

58.98

140

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

CAAGGTGATATGACCCGGGC

60.54

TGAATCAGTTCCATGTGCTCCC

60.62

141

PCR template sequence:

CAAGGTGATATGACCCGGGCTGGAAAGGTGAAGGTAGACAACTTCCTAGACTTAGAAGATGTGGACATGGAGGAAGAGAGTAAGCCCCAGATGAACAAGGAGGATAATGTGGCCAAATGGGGAGCACATGGAACTGATTCATCAGAAAATATATTTTCTACTGTAAAATGGAATCATAAAACTGAATCAAATGGTCGTCA

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

2

Interacting miRNAs (#binding sites)

mmu-miR-150-5p(1), mmu-miR-205-5p(1)

siRNAs for circular RNA silencing
Junction sequence

CAGATGAACAAGGAGGATAATGTGGC

siRNA sets

TATCCTCCTTGTTCATCTG, TTATCCTCCTTGTTCATCT, ATTATCCTCCTTGTTCATC

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

CIRCIFTAP_297_ORF_1

1.1649

0.293685055

0.71151886

387

ORF sequence:

ATGACCCGGGCTGGAAAGGTGAAGGTAGACAACTTCCTAGACTTAGAAGATGTGGACATGGAGGAAGAGAGTAAGCCCCAGATGAACAAGGAGGATAATGTGGCCAAATGGGGAGCACATGGAACTGATTCATCAGAAAATATATTTTCTACTGTAAAATGGAATCATAAAACTGAATCAAATGGTCGTCATTTTAGAAATACATCCATCTTTCTTCACACTTCATCGGAACACTCAGAAGAGGACCAGATTGTGATTGATGAAGGCCACAAAGTTGGGAGTTCCTTTCAAGGTGATATGACCCGGGCTGGAAAGGTGAAGGTAGACAACTTCCTAGACTTAGAAGATGTGGACATGGAGGAAGAGAGTAAGCCCCAGATGAACAAG

Peptide sequence:

MTRAGKVKVDNFLDLEDVDMEEESKPQMNKEDNVAKWGAHGTDSSENIFSTVKWNHKTESNGRHFRNTSIFLHTSSEHSEEDQIVIDEGHKVGSSFQGDMTRAGKVKVDNFLDLEDVDMEEESKPQMNK

IRESfinder result

IRESfinder score

0.57724268

IRES/non IRES

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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