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mmu_circAbcc4_808

Basic information of circular RNA
PanCircBase ID:

mmu_circAbcc4_808

mm39_Chr. Position ID:

chr14|118790695|118841665|-

Gene name:

Abcc4

Transcript:

ENSMUST00000036554.14

CircRNA type:

Exonic circular (circ)RNA

Exon/Intron count:

7

Exon/intron indexes:

20,19,18,17,16,15,14

Exon/intron offsets:

0,41478,43396,43855,44210,46030,50873

Genomic length:

50970

Exon/intron sizes in nt:

80,147,95,38,141,210,97

Flanking exon/introns:

chr14:118771554-118790695|chr14:118841665-118848848

Splice length:

808

Other database IDs:

circAtlas: mmu-Abcc4_0008

circBase: hsa_circ_0101017, circAtlas: hsa-ABCC4_0007, CIRCpedia: HSA_CIRCpedia_11213

Human Ortholog IDs:
Mature spliced Sequence:

GTGTATCTGTCAGGCGTTGCACGAGAAGATCACCATTTTAGTGACTCACCAGTTACAGTACCTCAAAGCTGCAAGCCACATCCTCATACTCAAAGATGGTGAGATGGTGCAGAAGGGGACTTACACGGAGTTTCTGAAATCTGGTGTAGATTTTGGCTCCCTGTTAAAGAAAGAAAACGAGGAAGCAGAGCCCTCCACAGCCCCAGGAACCCCGACACTCAGGAAACGAACCTTCTCCGAGGCCTCAATTTGGTCTCAGCAGTCATCCAGACCCTCGTTGAAAGACGGGGCCCCAGAGGGCCAAGACGCAGAGAACACGCAGGCAGTGCAACCCGAGGAGAGCCGTTCGGAAGGGAGAATCGGCTTCAAGGCCTACAAGAATTACTTCTCGGCGGGCGCATCCTGGTTCTTCATCATTTTCCTTGTGCTGCTTAACATGGTGGGCCAGGTTTTCTATGTTCTTCAGGACTGGTGGCTTTCCCACTGGGCGAACAAGCAAGGTGCACTGAACAACACCAGAAATGCGAATGGAAATATAACGGAGACCCTAGACCTCAGCTGGTACTTAGGAATTTACGCAGGTCTAACTGCGGTCACCGTCCTTTTTGGCATAGCGAGATCCCTACTGGTGTTCTATATCCTTGTGAACGCTTCCCAGACTTTGCACAACAGGATGTTTGAGTCCATACTGAAGGCTCCCGTGTTGTTCTTCGACAGAAATCCAATCGGGAGGATTTTAAATCGTTTCTCCAAAGACATCGGACACATGGATGATTTGCTTCCCCTGACGTTCCTGGACTTCATCCAG

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

TCTCCAAAGACATCGGACACA

59.03

TGGCTTGCAGCTTTGAGGTA

59.89

140

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

CCAAAGACATCGGACACATGG

59.26

GGATGTGGCTTGCAGCTTTG

60.39

142

PCR template sequence:

CTTCGACAGAAATCCAATCGGGAGGATTTTAAATCGTTTCTCCAAAGACATCGGACACATGGATGATTTGCTTCCCCTGACGTTCCTGGACTTCATCCAGGTGTATCTGTCAGGCGTTGCACGAGAAGATCACCATTTTAGTGACTCACCAGTTACAGTACCTCAAAGCTGCAAGCCACATCCTCATACTCAAAGATGGT

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-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-375-3p(1), mmu-miR-15b-5p(1), mmu-miR-328-3p(1), mmu-miR-326-3p(1), mmu-miR-22-3p(1), mmu-miR-697(1)

siRNAs for circular RNA silencing
Junction sequence

GGACTTCATCCAGGTGTATCTGTCAG

siRNA sets

AGATACACCTGGATGAAGT,GATACACCTGGATGAAGTC

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

CIRCABCC4_808_ORF_1

0.9315

0.187593021

0.954432941

807

ORF sequence:

ATGGTGCAGAAGGGGACTTACACGGAGTTTCTGAAATCTGGTGTAGATTTTGGCTCCCTGTTAAAGAAAGAAAACGAGGAAGCAGAGCCCTCCACAGCCCCAGGAACCCCGACACTCAGGAAACGAACCTTCTCCGAGGCCTCAATTTGGTCTCAGCAGTCATCCAGACCCTCGTTGAAAGACGGGGCCCCAGAGGGCCAAGACGCAGAGAACACGCAGGCAGTGCAACCCGAGGAGAGCCGTTCGGAAGGGAGAATCGGCTTCAAGGCCTACAAGAATTACTTCTCGGCGGGCGCATCCTGGTTCTTCATCATTTTCCTTGTGCTGCTTAACATGGTGGGCCAGGTTTTCTATGTTCTTCAGGACTGGTGGCTTTCCCACTGGGCGAACAAGCAAGGTGCACTGAACAACACCAGAAATGCGAATGGAAATATAACGGAGACCCTAGACCTCAGCTGGTACTTAGGAATTTACGCAGGTCTAACTGCGGTCACCGTCCTTTTTGGCATAGCGAGATCCCTACTGGTGTTCTATATCCTTGTGAACGCTTCCCAGACTTTGCACAACAGGATGTTTGAGTCCATACTGAAGGCTCCCGTGTTGTTCTTCGACAGAAATCCAATCGGGAGGATTTTAAATCGTTTCTCCAAAGACATCGGACACATGGATGATTTGCTTCCCCTGACGTTCCTGGACTTCATCCAGGTGTATCTGTCAGGCGTTGCACGAGAAGATCACCATTTTAGTGACTCACCAGTTACAGTACCTCAAAGCTGCAAGCCACATCCTCATACTCAAAGATGGTGA

Peptide sequence:

MVQKGTYTEFLKSGVDFGSLLKKENEEAEPSTAPGTPTLRKRTFSEASIWSQQSSRPSLKDGAPEGQDAENTQAVQPEESRSEGRIGFKAYKNYFSAGASWFFIIFLVLLNMVGQVFYVLQDWWLSHWANKQGALNNTRNANGNITETLDLSWYLGIYAGLTAVTVLFGIARSLLVFYILVNASQTLHNRMFESILKAPVLFFDRNPIGRILNRFSKDIGHMDDLLPLTFLDFIQVYLSGVAREDHHFSDSPVTVPQSCKPHPHTQRW

IRESfinder result

IRESfinder score

0.588675906

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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