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mmu_circAtrn_2073
Basic information of circular RNA
PanCircBase ID:
mmu_circAtrn_2073
mm39_Chr. Position ID:
chr2|130814144|130865036|+
Gene name:
Atrn
Transcript:
ENSMUST00000028781.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
16
Exon/intron indexes:
13,14,15,16,17,18,19,20,21,22,23,24,25,26,27,28
Exon/intron offsets:
0,1152,3653,7705,9679,10370,14493,21896,22806,26921,30537,32223,41382,46388,48716,50777
Genomic length:
50892
Exon/intron sizes in nt:
1,22,13,91,91,22,01,86,00,00,00,00,00,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr2:130812145-130814144|chr2:130865036-130867736
Splice length:
2073
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
CCCTTGACCATGACAGATGTGACCAGCACACAGATTGTTACAGCTGCACAGCCAATACCAATGACTGCCACTGGTGCAATGATCACTGTGTCCCTGTGAACCACAGCTGCACAGAAGGCCAGATCTCCATTGCCAAGTATGAGAGTTGCCCCAAGGATAACCCCATGTACTACTGCAATAAGAAAACCAGCTGCAGGAGCTGTGCCCTAGACCAGAACTGCCAGTGGGAGCCCCGGAATCAAGAGTGCATCGCCCTGCCGGAAAATATCTGTGGCAATGGCTGGCATTTGGTTGGAAACTCGTGTCTGAAAATCACTACTGCTAAGGAGAATTATGACAATGCTAAATTGTCCTGTAGGAACCACAATGCCTTTTTGGCTTCCCTCACATCCCAGAAGAAGGTGGAGTTTGTCCTTAAGCAGCTTCGATTAATGCAATCATCTCAAAGTATGTCCAAGCTCACTCTGACTCCATGGGTTGGTCTTCGGAAGATCAATGTGTCTTACTGGTGCTGGGAGGATATGTCTCCATTCACAAATAGTTTGCTGCAGTGGATGCCATCTGAGCCCAGTGATGCTGGCTTCTGTGGGATCTTGTCAGAGCCTAGTACTCGGGGATTAAAGGCTGCAACCTGCATCAACCCTCTCAATGGCAGCGTCTGTGAAAGGCCTGCAAACCACAGTGCCAAGCAGTGCCGGACACCATGTGCCCTGCGGACAGCGTGTGGCGAGTGCACTAGCAGCAGCTCGGAGTGCATGTGGTGCAGTAACATGAAGCAGTGTGTGGACTCCAATGCCTACGTGGCCTCCTTCCCTTTTGGCCAGTGTATGGAATGGTATACGATGAGCAGCTGCCCACCTGAAAATTGCTCTGGCTACTGTACCTGCAGCCATTGCTTGGAGCAGCCAGGCTGTGGTTGGTGTACTGATCCTAGCAATACTGGGAAAGGAAAATGTATTGAGGGCAGCTATAAAGGACCTGTGAAGATGCCGTCACAGGCCTCTGCAGGAAATGTGTATCCACAGCCCCTTCTGAACTCCAGCATGTGTCTAGAGGACAGCAGATACAACTGGTCTTTCATTCACTGTCCAGCTTGCCAGTGCAACGGACACAGCAAATGCATCAACCAGAGTATCTGTGAGAAGTGTGAGGACCTGACCACGGGCAAGCACTGCGAGACCTGCATATCTGGCTTCTATGGTGACCCGACTAATGGAGGCAAATGTCAGCCATGCAAGTGCAATGGGCACGCATCACTGTGCAACACCAACACCGGCAAGTGCTTCTGTACCACCAAAGGTGTCAAGGGGGACGAGTGCCAGCTATGTGAGGTAGAAAATCGATACCAGGGAAACCCTCTCAAAGGAACATGCTACTATACCCTTCTCATTGACTATCAGTTCACCTTTAGCCTGTCCCAGGAAGACGACCGCTACTACACAGCCATCAACTTTGTGGCTACTCCTGATGAACAAAACAGGGATTTGGACATGTTCATCAATGCCTCCAAAAACTTCAACCTCAACATCACCTGGGCCACCAGCTTCCCAGCCGGAACCCAGACTGGAGAAGAGGTGCCTGTTGTTTCAAAAACCAACATCAAGGAATACAAAGATAGCTTCTCTAATGAGAAATTTGATTTTCGCAACCATCCAAACATCACTTTCTTTGTTTATGTCAGTAATTTCACTTGGCCCATCAAAATTCAGATTGCCTTCTCCCAGCACAGCAACTTCATGGACCTGGTACAGTTCTTCGTGACTTTCTTCAGTTGTTTCCTCTCGCTGCTTCTGGTGGCTGCAGTGGTCTGGAAGATCAAGCAGAGCTGTTGGGCATCCAGGCGGAGAGAGCAACTTCTTCGGGAGATGCAACAGATGGCCAGCCGCCCCTTTGCTTCTGTAAACGTTGCCTTGGAAACAGATGAAGAACCTCCTGATCTCATTGGGGGAAGTATAAAGACCGTTCCTAAGCCCATTGCCCTGGAGCCCTGCTTTGGTAACAAAGCCGCAGTCCTCTCTGTATTCGTGAGGCTCCCTCGAGGACTGGGAGGAATCCCTCCTCCTGGTCAGTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTGGAGCCCTGCTTTGGTAA
59.96
GTGATCATTGCACCAGTGGC
59.83
180
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTGGAGCCCTGCTTTGGTAA
59.96
TGATCATTGCACCAGTGGCA
60.25
179
PCR template sequence:
ATTGCCCTGGAGCCCTGCTTTGGTAACAAAGCCGCAGTCCTCTCTGTATTCGTGAGGCTCCCTCGAGGACTGGGAGGAATCCCTCCTCCTGGTCAGTCAGCCCTTGACCATGACAGATGTGACCAGCACACAGATTGTTACAGCTGCACAGCCAATACCAATGACTGCCACTGGTGCAATGATCACTGTGTCCCTGTGAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
16
Interacting miRNAs (#binding sites)
mmu-miR-92a-3p(2), mmu-miR-298-5p(2), mmu-miR-25-3p(2), mmu-miR-338-3p(2), mmu-miR-9-5p(1), mmu-miR-32-5p(1), mmu-miR-29b-3p(1), mmu-miR-7a-5p(1), mmu-miR-128-3p(1), mmu-miR-503-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-182-5p(1), mmu-miR-541-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-207(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CCTGGTCAGTCAGCCCTTGACCATGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATRN_2073_ORF_1
0.7784
0.225511887
1
3981
ORF sequence:
ATGTACTACTGCAATAAGAAAACCAGCTGCAGGAGCTGTGCCCTAGACCAGAACTGCCAGTGGGAGCCCCGGAATCAAGAGTGCATCGCCCTGCCGGAAAATATCTGTGGCAATGGCTGGCATTTGGTTGGAAACTCGTGTCTGAAAATCACTACTGCTAAGGAGAATTATGACAATGCTAAATTGTCCTGTAGGAACCACAATGCCTTTTTGGCTTCCCTCACATCCCAGAAGAAGGTGGAGTTTGTCCTTAAGCAGCTTCGATTAATGCAATCATCTCAAAGTATGTCCAAGCTCACTCTGACTCCATGGGTTGGTCTTCGGAAGATCAATGTGTCTTACTGGTGCTGGGAGGATATGTCTCCATTCACAAATAGTTTGCTGCAGTGGATGCCATCTGAGCCCAGTGATGCTGGCTTCTGTGGGATCTTGTCAGAGCCTAGTACTCGGGGATTAAAGGCTGCAACCTGCATCAACCCTCTCAATGGCAGCGTCTGTGAAAGGCCTGCAAACCACAGTGCCAAGCAGTGCCGGACACCATGTGCCCTGCGGACAGCGTGTGGCGAGTGCACTAGCAGCAGCTCGGAGTGCATGTGGTGCAGTAACATGAAGCAGTGTGTGGACTCCAATGCCTACGTGGCCTCCTTCCCTTTTGGCCAGTGTATGGAATGGTATACGATGAGCAGCTGCCCACCTGAAAATTGCTCTGGCTACTGTACCTGCAGCCATTGCTTGGAGCAGCCAGGCTGTGGTTGGTGTACTGATCCTAGCAATACTGGGAAAGGAAAATGTATTGAGGGCAGCTATAAAGGACCTGTGAAGATGCCGTCACAGGCCTCTGCAGGAAATGTGTATCCACAGCCCCTTCTGAACTCCAGCATGTGTCTAGAGGACAGCAGATACAACTGGTCTTTCATTCACTGTCCAGCTTGCCAGTGCAACGGACACAGCAAATGCATCAACCAGAGTATCTGTGAGAAGTGTGAGGACCTGACCACGGGCAAGCACTGCGAGACCTGCATATCTGGCTTCTATGGTGACCCGACTAATGGAGGCAAATGTCAGCCATGCAAGTGCAATGGGCACGCATCACTGTGCAACACCAACACCGGCAAGTGCTTCTGTACCACCAAAGGTGTCAAGGGGGACGAGTGCCAGCTATGTGAGGTAGAAAATCGATACCAGGGAAACCCTCTCAAAGGAACATGCTACTATACCCTTCTCATTGACTATCAGTTCACCTTTAGCCTGTCCCAGGAAGACGACCGCTACTACACAGCCATCAACTTTGTGGCTACTCCTGATGAACAAAACAGGGATTTGGACATGTTCATCAATGCCTCCAAAAACTTCAACCTCAACATCACCTGGGCCACCAGCTTCCCAGCCGGAACCCAGACTGGAGAAGAGGTGCCTGTTGTTTCAAAAACCAACATCAAGGAATACAAAGATAGCTTCTCTAATGAGAAATTTGATTTTCGCAACCATCCAAACATCACTTTCTTTGTTTATGTCAGTAATTTCACTTGGCCCATCAAAATTCAGATTGCCTTCTCCCAGCACAGCAACTTCATGGACCTGGTACAGTTCTTCGTGACTTTCTTCAGTTGTTTCCTCTCGCTGCTTCTGGTGGCTGCAGTGGTCTGGAAGATCAAGCAGAGCTGTTGGGCATCCAGGCGGAGAGAGCAACTTCTTCGGGAGATGCAACAGATGGCCAGCCGCCCCTTTGCTTCTGTAAACGTTGCCTTGGAAACAGATGAAGAACCTCCTGATCTCATTGGGGGAAGTATAAAGACCGTTCCTAAGCCCATTGCCCTGGAGCCCTGCTTTGGTAACAAAGCCGCAGTCCTCTCTGTATTCGTGAGGCTCCCTCGAGGACTGGGAGGAATCCCTCCTCCTGGTCAGTCAGCCCTTGACCATGACAGATGTGACCAGCACACAGATTGTTACAGCTGCACAGCCAATACCAATGACTGCCACTGGTGCAATGATCACTGTGTCCCTGTGAACCACAGCTGCACAGAAGGCCAGATCTCCATTGCCAAGTATGAGAGTTGCCCCAAGGATAACCCCATGTACTACTGCAATAAGAAAACCAGCTGCAGGAGCTGTGCCCTAGACCAGAACTGCCAGTGGGAGCCCCGGAATCAAGAGTGCATCGCCCTGCCGGAAAATATCTGTGGCAATGGCTGGCATTTGGTTGGAAACTCGTGTCTGAAAATCACTACTGCTAAGGAGAATTATGACAATGCTAAATTGTCCTGTAGGAACCACAATGCCTTTTTGGCTTCCCTCACATCCCAGAAGAAGGTGGAGTTTGTCCTTAAGCAGCTTCGATTAATGCAATCATCTCAAAGTATGTCCAAGCTCACTCTGACTCCATGGGTTGGTCTTCGGAAGATCAATGTGTCTTACTGGTGCTGGGAGGATATGTCTCCATTCACAAATAGTTTGCTGCAGTGGATGCCATCTGAGCCCAGTGATGCTGGCTTCTGTGGGATCTTGTCAGAGCCTAGTACTCGGGGATTAAAGGCTGCAACCTGCATCAACCCTCTCAATGGCAGCGTCTGTGAAAGGCCTGCAAACCACAGTGCCAAGCAGTGCCGGACACCATGTGCCCTGCGGACAGCGTGTGGCGAGTGCACTAGCAGCAGCTCGGAGTGCATGTGGTGCAGTAACATGAAGCAGTGTGTGGACTCCAATGCCTACGTGGCCTCCTTCCCTTTTGGCCAGTGTATGGAATGGTATACGATGAGCAGCTGCCCACCTGAAAATTGCTCTGGCTACTGTACCTGCAGCCATTGCTTGGAGCAGCCAGGCTGTGGTTGGTGTACTGATCCTAGCAATACTGGGAAAGGAAAATGTATTGAGGGCAGCTATAAAGGACCTGTGAAGATGCCGTCACAGGCCTCTGCAGGAAATGTGTATCCACAGCCCCTTCTGAACTCCAGCATGTGTCTAGAGGACAGCAGATACAACTGGTCTTTCATTCACTGTCCAGCTTGCCAGTGCAACGGACACAGCAAATGCATCAACCAGAGTATCTGTGAGAAGTGTGAGGACCTGACCACGGGCAAGCACTGCGAGACCTGCATATCTGGCTTCTATGGTGACCCGACTAATGGAGGCAAATGTCAGCCATGCAAGTGCAATGGGCACGCATCACTGTGCAACACCAACACCGGCAAGTGCTTCTGTACCACCAAAGGTGTCAAGGGGGACGAGTGCCAGCTATGTGAGGTAGAAAATCGATACCAGGGAAACCCTCTCAAAGGAACATGCTACTATACCCTTCTCATTGACTATCAGTTCACCTTTAGCCTGTCCCAGGAAGACGACCGCTACTACACAGCCATCAACTTTGTGGCTACTCCTGATGAACAAAACAGGGATTTGGACATGTTCATCAATGCCTCCAAAAACTTCAACCTCAACATCACCTGGGCCACCAGCTTCCCAGCCGGAACCCAGACTGGAGAAGAGGTGCCTGTTGTTTCAAAAACCAACATCAAGGAATACAAAGATAGCTTCTCTAATGAGAAATTTGATTTTCGCAACCATCCAAACATCACTTTCTTTGTTTATGTCAGTAATTTCACTTGGCCCATCAAAATTCAGATTGCCTTCTCCCAGCACAGCAACTTCATGGACCTGGTACAGTTCTTCGTGACTTTCTTCAGTTGTTTCCTCTCGCTGCTTCTGGTGGCTGCAGTGGTCTGGAAGATCAAGCAGAGCTGTTGGGCATCCAGGCGGAGAGAGCAACTTCTTCGGGAGATGCAACAGATGGCCAGCCGCCCCTTTGCTTCTGTAAACGTTGCCTTGGAAACAGATGAAGAACCTCCTGATCTCATTGGGGGAAGTATAAAGACCGTTCCTAAGCCCATTGCCCTGGAGCCCTGCTTTGGTAACAAAGCCGCAGTCCTCTCTGTATTCGTGAGGCTCCCTCGAGGACTGGGAGGAATCCCTCCTCCTGGTCAGTCA
Peptide sequence:
MYYCNKKTSCRSCALDQNCQWEPRNQECIALPENICGNGWHLVGNSCLKITTAKENYDNAKLSCRNHNAFLASLTSQKKVEFVLKQLRLMQSSQSMSKLTLTPWVGLRKINVSYWCWEDMSPFTNSLLQWMPSEPSDAGFCGILSEPSTRGLKAATCINPLNGSVCERPANHSAKQCRTPCALRTACGECTSSSSECMWCSNMKQCVDSNAYVASFPFGQCMEWYTMSSCPPENCSGYCTCSHCLEQPGCGWCTDPSNTGKGKCIEGSYKGPVKMPSQASAGNVYPQPLLNSSMCLEDSRYNWSFIHCPACQCNGHSKCINQSICEKCEDLTTGKHCETCISGFYGDPTNGGKCQPCKCNGHASLCNTNTGKCFCTTKGVKGDECQLCEVENRYQGNPLKGTCYYTLLIDYQFTFSLSQEDDRYYTAINFVATPDEQNRDLDMFINASKNFNLNITWATSFPAGTQTGEEVPVVSKTNIKEYKDSFSNEKFDFRNHPNITFFVYVSNFTWPIKIQIAFSQHSNFMDLVQFFVTFFSCFLSLLLVAAVVWKIKQSCWASRRREQLLREMQQMASRPFASVNVALETDEEPPDLIGGSIKTVPKPIALEPCFGNKAAVLSVFVRLPRGLGGIPPPGQSALDHDRCDQHTDCYSCTANTNDCHWCNDHCVPVNHSCTEGQISIAKYESCPKDNPMYYCNKKTSCRSCALDQNCQWEPRNQECIALPENICGNGWHLVGNSCLKITTAKENYDNAKLSCRNHNAFLASLTSQKKVEFVLKQLRLMQSSQSMSKLTLTPWVGLRKINVSYWCWEDMSPFTNSLLQWMPSEPSDAGFCGILSEPSTRGLKAATCINPLNGSVCERPANHSAKQCRTPCALRTACGECTSSSSECMWCSNMKQCVDSNAYVASFPFGQCMEWYTMSSCPPENCSGYCTCSHCLEQPGCGWCTDPSNTGKGKCIEGSYKGPVKMPSQASAGNVYPQPLLNSSMCLEDSRYNWSFIHCPACQCNGHSKCINQSICEKCEDLTTGKHCETCISGFYGDPTNGGKCQPCKCNGHASLCNTNTGKCFCTTKGVKGDECQLCEVENRYQGNPLKGTCYYTLLIDYQFTFSLSQEDDRYYTAINFVATPDEQNRDLDMFINASKNFNLNITWATSFPAGTQTGEEVPVVSKTNIKEYKDSFSNEKFDFRNHPNITFFVYVSNFTWPIKIQIAFSQHSNFMDLVQFFVTFFSCFLSLLLVAAVVWKIKQSCWASRRREQLLREMQQMASRPFASVNVALETDEEPPDLIGGSIKTVPKPIALEPCFGNKAAVLSVFVRLPRGLGGIPPPGQS
IRESfinder result
IRESfinder score
0.514305383
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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