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mmu_circRab27a_489

Basic information of circular RNA
PanCircBase ID:

mmu_circRab27a_489

mm39_Chr. Position ID:

chr9|72982674|72994482|+

Gene name:

Rab27a

Transcript:

ENSMUST00000184146.8

CircRNA type:

Exonic circular (circ)RNA

Exon/Intron count:

4

Exon/intron indexes:

3,4,5,6

Exon/intron offsets:

0,7009,9538,11684

Genomic length:

11808

Exon/intron sizes in nt:

17,58,61,04,124

Flanking exon/introns:

chr9:72968406-72982674|chr9:72994482-73002539

Splice length:

489

Other database IDs:

circAtlas: mmu-Rab27a_0002

circBase: hsa_circ_0003863, circAtlas: hsa-RAB27A_0002, CIRCpedia: HSA_CIRCpedia_14799

Human Ortholog IDs:
Mature spliced Sequence:

GTGAGGCACAGAGTTCTCCATCATGTCGGATGGAGATTACGATTACCTCATCAAGTTCTTGGCCTTGGGAGACTCTGGGGTAGGGAAGACCAGTGTACTCTACCAGTACACTGATGGCAAGTTCAACTCCAAATTCATCACCACAGTGGGCATTGATTTCAGGGAAAAGAGAGTGGTGTACAGAGCCAATGGGCCAGATGGAGCTGTGGGCCGAGGCCAGAGAATCCACCTGCAGTTATGGGACACGGCGGGGCAGGAGAGGTTTCGTAGCTTAACCACTGCATTCTTCAGGGACGCTATGGGTTTCCTGCTTCTGTTCGACCTGACAAATGAGCAAAGTTTCCTCAATGTCCGAAACTGGATAAGCCAGCTACAGATGCACGCGTACTGTGAAAACCCAGATATAGTGCTGTGTGGAAATAAGAGTGACCTGGAAGACCAGAGGGCAGTGAAAGAGGAGGAGGCCCGGGAACTTGCCGAGAAGTACGG

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

CCAGAGGGCAGTGAAAGAGG

60.04

TGGTCTTCCCTACCCCAGAG

59.96

143

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

CCAGAGGGCAGTGAAAGAGG

60.04

CTGGTCTTCCCTACCCCAGA

59.96

144

PCR template sequence:

GTGAAAACCCAGATATAGTGCTGTGTGGAAATAAGAGTGACCTGGAAGACCAGAGGGCAGTGAAAGAGGAGGAGGCCCGGGAACTTGCCGAGAAGTACGGGTGAGGCACAGAGTTCTCCATCATGTCGGATGGAGATTACGATTACCTCATCAAGTTCTTGGCCTTGGGAGACTCTGGGGTAGGGAAGACCAGTGTACTC

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

6

Interacting miRNAs (#binding sites)

mmu-miR-101a-3p(1), mmu-miR-136-5p(1), mmu-miR-324-3p(1), mmu-miR-207(1), mmu-miR-673-5p(1), mmu-miR-670-5p(1)

siRNAs for circular RNA silencing
Junction sequence

CCGAGAAGTACGGGTGAGGCACAGAG

siRNA sets

NA

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

CIRCRAB27A_489_ORF_1

1.0154

0.372140226

0.823857832

471

ORF sequence:

ATGTCGGATGGAGATTACGATTACCTCATCAAGTTCTTGGCCTTGGGAGACTCTGGGGTAGGGAAGACCAGTGTACTCTACCAGTACACTGATGGCAAGTTCAACTCCAAATTCATCACCACAGTGGGCATTGATTTCAGGGAAAAGAGAGTGGTGTACAGAGCCAATGGGCCAGATGGAGCTGTGGGCCGAGGCCAGAGAATCCACCTGCAGTTATGGGACACGGCGGGGCAGGAGAGGTTTCGTAGCTTAACCACTGCATTCTTCAGGGACGCTATGGGTTTCCTGCTTCTGTTCGACCTGACAAATGAGCAAAGTTTCCTCAATGTCCGAAACTGGATAAGCCAGCTACAGATGCACGCGTACTGTGAAAACCCAGATATAGTGCTGTGTGGAAATAAGAGTGACCTGGAAGACCAGAGGGCAGTGAAAGAGGAGGAGGCCCGGGAACTTGCCGAGAAGTACGGGTGA

Peptide sequence:

MSDGDYDYLIKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDGAVGRGQRIHLQLWDTAGQERFRSLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYCENPDIVLCGNKSDLEDQRAVKEEEARELAEKYG

IRESfinder result

IRESfinder score

0.448772379

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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