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mmu_circBirc2_1875
Basic information of circular RNA
PanCircBase ID:
mmu_circBirc2_1875
mm39_Chr. Position ID:
chr9|7833505|7835380|-
Gene name:
Birc2
Transcript:
ENSMUST00000190341.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
2
Exon/intron offsets:
0
Genomic length:
1875
Exon/intron sizes in nt:
1875
Flanking exon/introns:
chr9:7827010-7833505|chr9:7835380-7836990
Splice length:
1875
Other database IDs:
circAtlas: mmu-Birc2_0008
Human Ortholog IDs:
Mature spliced Sequence:
ATTGATAGTCCTCAAGAGTCTTCATGTTCTCTTATGTTTTTCTAGAAATCAGCCCACTCATGGACATCTGAACATTTCTATAAGACGCTGCGGTTTGCTTTGCAGTGTGTTCTTGTGTATGATTAGTTATATAAAATACGAAGTTTTCAAAAAGAAGGCTAGTGCAACAGAAAAGCTTTGCTAAAACAGATTCTTAGTTATTTGAGGTAACAAAAGAAAGCCATGTCTTGAATTGATTCGTTCTTAATTATAACAGACTTATAGTGGAAAGGGCCTTAAACACAGGCGGACTTTATAAAATGCAGTCTTAGGTTTATGTGCAAAATACTGTCTGTTGACCAGATGTATTCACATGATATATACAGAGTCAAGGTGGTGATATAGAAGATTTAACAGTGAGGGAGTTAACAGTCTGTGCTTTAAGCGCAGTTCCTTTACAGTGAATACTGTAGTCTTAATAGACCTGAGCTGACTGCTGCAGTTGATGTAACCCACTTTAGAGAATACTGTATGACATCTTCTCTAAGGAAAACCAGCTGCAGACTTCACTCAGTTCCTTTCATTTCATAGGAAAAGGAGTAGTTCAGATGTCATGTTTAAGTCCTTATAAGGGAAAAGAGCCTGAATATATGCCCTAGTACCTAGGCTTCATAACTAGTAATAAGAAGTTAGTTATGGGTAAATAGATCTCAGGTTACCCAGAAGAGTTCATGTGACCCCCAAAGAGTCCTAACTAGTGTCTTGGCAAGTGAGACAGATTTGTCCTGTGAGGGTGTCAATTCACCAGTCCAAGCAGAAGACAATGAATCTATCCAGTCAGGTGTCTGTGGTGGAGATCTAGTGTCAAGTGGTGAGAAACTTCATCTGGAAGTTTAAGCGGTCAGAAATACTATTACTACTCATGGACAAAACTGTCTCCCAGAGACTCGGCCAAGGTACCTTACACCAAAAACTTAAACGTATAATGGAGAAGAGCACAATCTTGTCAAATTGGACAAAGGAGAGCGAAGAAAAAATGAAGTTTGACTTTTCGTGTGAACTCTACCGAATGTCTACATATTCAGCTTTTCCCAGGGGAGTTCCTGTCTCAGAGAGGAGTCTGGCTCGTGCTGGCTTTTATTATACAGGTGTGAATGACAAAGTCAAGTGCTTCTGCTGTGGCCTGATGTTGGATAACTGGAAACAAGGGGACAGTCCTGTTGAAAAGCACAGACAGTTCTATCCCAGCTGCAGCTTTGTACAGACTCTGCTTTCAGCCAGTCTGCAGTCTCCATCTAAGAATATGTCTCCTGTGAAAAGTAGATTTGCACATTCGTCACCTCTGGAACGAGGTGGCATTCACTCCAACCTGTGCTCTAGCCCTCTTAATTCTAGAGCAGTGGAAGACTTCTCATCAAGGATGGATCCCTGCAGCTATGCCATGAGTACAGAAGAGGCCAGATTTCTTACTTACAGTATGTGGCCTTTAAGTTTTCTGTCACCAGCAGAGCTGGCCAGAGCTGGCTTCTATTACATAGGGCCTGGAGACAGGGTGGCCTGTTTTGCCTGTGGTGGGAAACTGAGCAACTGGGAACCAAAGGATGATGCTATGTCAGAGCACCGCAGACATTTTCCCCACTGTCCATTTCTGGAAAATACTTCAGAAACACAGAGGTTTAGTATATCAAATCTAAGTATGCAGACACACTCTGCTCGATTGAGGACATTTCTGTACTGGCCACCTAGTGTTCCTGTTCAGCCCGAGCAGCTTGCAAGTGCTGGATTCTATTACGTGGATCGCAATGATGATGTCAAGTGCTTTTGTTGTGATGGTGGCTTGAGATGTTGGGAACCTGGAGATGACCCCTGGATAGAACACGCCAAATGGTTTCCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGTGGCTTGAGATGTTGGGA
59.96
AGCAAACCGCAGCGTCTTAT
60.67
164
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGTGGCTTGAGATGTTGGGA
59.96
AAGCAAACCGCAGCGTCTTA
60.88
165
PCR template sequence:
ATCGCAATGATGATGTCAAGTGCTTTTGTTGTGATGGTGGCTTGAGATGTTGGGAACCTGGAGATGACCCCTGGATAGAACACGCCAAATGGTTTCCAAGATTGATAGTCCTCAAGAGTCTTCATGTTCTCTTATGTTTTTCTAGAAATCAGCCCACTCATGGACATCTGAACATTTCTATAAGACGCTGCGGTTTGCTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
15
Interacting miRNAs (#binding sites)
mmu-miR-320-3p(2), mmu-miR-9-5p(1), mmu-miR-135a-5p(1), mmu-miR-19b-3p(1), mmu-miR-19a-3p(1), mmu-miR-339-5p(1), mmu-miR-136-5p(1), mmu-miR-26b-5p(1), mmu-miR-125a-5p(1), mmu-miR-297a-5p(1), mmu-miR-499-5p(1), mmu-miR-190b-5p(1), mmu-miR-484(1), mmu-miR-3065-5p(1), mmu-miR-574-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AATGGTTTCCAAGATTGATAGTCCTC
siRNA sets
ACTATCAATCTTGGAAACC,CTATCAATCTTGGAAACCA,GAGGACTATCAATCTTGGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBIRC2_1875_ORF_1
0.4982
-0.039074407
0.977956549
1158
ORF sequence:
ATGGACAAAACTGTCTCCCAGAGACTCGGCCAAGGTACCTTACACCAAAAACTTAAACGTATAATGGAGAAGAGCACAATCTTGTCAAATTGGACAAAGGAGAGCGAAGAAAAAATGAAGTTTGACTTTTCGTGTGAACTCTACCGAATGTCTACATATTCAGCTTTTCCCAGGGGAGTTCCTGTCTCAGAGAGGAGTCTGGCTCGTGCTGGCTTTTATTATACAGGTGTGAATGACAAAGTCAAGTGCTTCTGCTGTGGCCTGATGTTGGATAACTGGAAACAAGGGGACAGTCCTGTTGAAAAGCACAGACAGTTCTATCCCAGCTGCAGCTTTGTACAGACTCTGCTTTCAGCCAGTCTGCAGTCTCCATCTAAGAATATGTCTCCTGTGAAAAGTAGATTTGCACATTCGTCACCTCTGGAACGAGGTGGCATTCACTCCAACCTGTGCTCTAGCCCTCTTAATTCTAGAGCAGTGGAAGACTTCTCATCAAGGATGGATCCCTGCAGCTATGCCATGAGTACAGAAGAGGCCAGATTTCTTACTTACAGTATGTGGCCTTTAAGTTTTCTGTCACCAGCAGAGCTGGCCAGAGCTGGCTTCTATTACATAGGGCCTGGAGACAGGGTGGCCTGTTTTGCCTGTGGTGGGAAACTGAGCAACTGGGAACCAAAGGATGATGCTATGTCAGAGCACCGCAGACATTTTCCCCACTGTCCATTTCTGGAAAATACTTCAGAAACACAGAGGTTTAGTATATCAAATCTAAGTATGCAGACACACTCTGCTCGATTGAGGACATTTCTGTACTGGCCACCTAGTGTTCCTGTTCAGCCCGAGCAGCTTGCAAGTGCTGGATTCTATTACGTGGATCGCAATGATGATGTCAAGTGCTTTTGTTGTGATGGTGGCTTGAGATGTTGGGAACCTGGAGATGACCCCTGGATAGAACACGCCAAATGGTTTCCAAGATTGATAGTCCTCAAGAGTCTTCATGTTCTCTTATGTTTTTCTAGAAATCAGCCCACTCATGGACATCTGAACATTTCTATAAGACGCTGCGGTTTGCTTTGCAGTGTGTTCTTGTGTATGATTAGTTATATAAAATACGAAGTTTTCAAAAAGAAGGCTAGTGCAACAGAAAAGCTTTGCTAA
Peptide sequence:
MDKTVSQRLGQGTLHQKLKRIMEKSTILSNWTKESEEKMKFDFSCELYRMSTYSAFPRGVPVSERSLARAGFYYTGVNDKVKCFCCGLMLDNWKQGDSPVEKHRQFYPSCSFVQTLLSASLQSPSKNMSPVKSRFAHSSPLERGGIHSNLCSSPLNSRAVEDFSSRMDPCSYAMSTEEARFLTYSMWPLSFLSPAELARAGFYYIGPGDRVACFACGGKLSNWEPKDDAMSEHRRHFPHCPFLENTSETQRFSISNLSMQTHSARLRTFLYWPPSVPVQPEQLASAGFYYVDRNDDVKCFCCDGGLRCWEPGDDPWIEHAKWFPRLIVLKSLHVLLCFSRNQPTHGHLNISIRRCGLLCSVFLCMISYIKYEVFKKKASATEKLC
IRESfinder result
IRESfinder score
0.678449085
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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