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mmu_circAbcb9_675

Basic information of circular RNA
PanCircBase ID:

mmu_circAbcb9_675

mm39_Chr. Position ID:

chr5|124227650|124228325|-

Gene name:

Abcb9

Transcript:

ENSMUST00000031354.11

CircRNA type:

Exonic circular (circ)RNA

Exon/Intron count:

1

Exon/intron indexes:

2

Exon/intron offsets:

0

Genomic length:

675

Exon/intron sizes in nt:

675

Flanking exon/introns:

chr5:124221783-124227650|chr5:124228325-124233708

Splice length:

675

Other database IDs:

CIRCpedia: MMU_CIRCpedia_214934, circAtlas: mmu-Abcb9_0002

circBase: hsa_circ_0097680, circAtlas: hsa-ABCB9_0003, CIRCpedia: HSA_CIRCpedia_72802

Human Ortholog IDs:
Mature spliced Sequence:

GTGTGGCCCTGCCCAGCTGTCAGTGATGGCCTTGCCCCGGTGAGCCAAAGCCTGCCCCTCTCACCCGCCGGCCACCAGCCAGCAGGATGAGGCTGTGGAAGGCGGTAGTAGTGACGCTGGCCTTCGTGAGCACGGACGTCGGGGTGACCACGGCCATCTACGCCTTCAGCCACCTGGACCGTAGCCTGCTGGAGGACATCCGACACTTTAACATCTTCGACTCGGTGCTGGACCTCTGGGCTGCCTGCCTGTACCGCAGCTGCCTGCTGCTGGGGGCTACCATAGGCGTGGCCAAGAACAGCGCTCTGGGGCCAAGGCGCCTGCGGGCTTCGTGGCTCGTCATCACCCTCGTGTGCCTCTTTGTGGGCATCTATGCCATGGCCAAACTGCTACTCTTCTCAGAAGTGCGCAGGCCCATCCGGGACCCATGGTTCTGGGCGCTCTTCGTGTGGACCTACATCTCGCTGGCTGCCTCCTTCCTGCTGTGGGGGCTGCTGGCCACTGTGCGGCCGGACGCAGAGGCCCTGGAGCCAGGGAATGAGGGCTTCCACGGGGAGGGTGGGGCCCCTGCTGAGCAGGCATCGGGAGCCACACTACAGAAGCTGTTGTCCTACACAAAGCCTGACGTGGCCTTCCTAGTAGCTGCCTCCTTTTTCCTCATCGTAGCAGCTCTGG

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

GACGTGGCCTTCCTAGTAGC

59.9

TTCCACAGCCTCATCCTGCT

61.2

152

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

CGTGGCCTTCCTAGTAGCTG

59.9

TTCCACAGCCTCATCCTGCT

61.2

150

PCR template sequence:

CAGGCATCGGGAGCCACACTACAGAAGCTGTTGTCCTACACAAAGCCTGACGTGGCCTTCCTAGTAGCTGCCTCCTTTTTCCTCATCGTAGCAGCTCTGGGTGTGGCCCTGCCCAGCTGTCAGTGATGGCCTTGCCCCGGTGAGCCAAAGCCTGCCCCTCTCACCCGCCGGCCACCAGCCAGCAGGATGAGGCTGTGGAA

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

8

Interacting miRNAs (#binding sites)

mmu-miR-296-5p(1), mmu-miR-27a-3p(1), mmu-miR-709(1), mmu-miR-214-3p(1), mmu-miR-128-3p(1), mmu-miR-149-5p(1), mmu-miR-370-3p(1), mmu-miR-690(1)

siRNAs for circular RNA silencing
Junction sequence

GTAGCAGCTCTGGGTGTGGCCCTGCC

siRNA sets

NA

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

CIRCABCB9_675_ORF_1

1.2788

0.472457558

0.969914618

615

ORF sequence:

ATGAGGCTGTGGAAGGCGGTAGTAGTGACGCTGGCCTTCGTGAGCACGGACGTCGGGGTGACCACGGCCATCTACGCCTTCAGCCACCTGGACCGTAGCCTGCTGGAGGACATCCGACACTTTAACATCTTCGACTCGGTGCTGGACCTCTGGGCTGCCTGCCTGTACCGCAGCTGCCTGCTGCTGGGGGCTACCATAGGCGTGGCCAAGAACAGCGCTCTGGGGCCAAGGCGCCTGCGGGCTTCGTGGCTCGTCATCACCCTCGTGTGCCTCTTTGTGGGCATCTATGCCATGGCCAAACTGCTACTCTTCTCAGAAGTGCGCAGGCCCATCCGGGACCCATGGTTCTGGGCGCTCTTCGTGTGGACCTACATCTCGCTGGCTGCCTCCTTCCTGCTGTGGGGGCTGCTGGCCACTGTGCGGCCGGACGCAGAGGCCCTGGAGCCAGGGAATGAGGGCTTCCACGGGGAGGGTGGGGCCCCTGCTGAGCAGGCATCGGGAGCCACACTACAGAAGCTGTTGTCCTACACAAAGCCTGACGTGGCCTTCCTAGTAGCTGCCTCCTTTTTCCTCATCGTAGCAGCTCTGGGTGTGGCCCTGCCCAGCTGTCAGTGA

Peptide sequence:

MRLWKAVVVTLAFVSTDVGVTTAIYAFSHLDRSLLEDIRHFNIFDSVLDLWAACLYRSCLLLGATIGVAKNSALGPRRLRASWLVITLVCLFVGIYAMAKLLLFSEVRRPIRDPWFWALFVWTYISLAASFLLWGLLATVRPDAEALEPGNEGFHGEGGAPAEQASGATLQKLLSYTKPDVAFLVAASFFLIVAALGVALPSCQ

IRESfinder result

IRESfinder score

0.282437233

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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