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mmu_circFam193a_1851
Basic information of circular RNA
PanCircBase ID:
mmu_circFam193a_1851
mm39_Chr. Position ID:
chr5|34577344|34602257|+
Gene name:
Fam193a
Transcript:
ENSMUST00000180376.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
11
Exon/intron indexes:
3,4,5,6,7,8,9,10,11,12,13
Exon/intron offsets:
0,783,6266,11131,16450,19310,20120,20347,23300,23578,24661
Genomic length:
24913
Exon/intron sizes in nt:
1,55,16,82,35,12,51,48,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr5:34568167-34577344|chr5:34602257-34615248
Splice length:
1851
Other database IDs:
circBase: mmu_circ_0012572, CIRCpedia: MMU_CIRCpedia_17299, circAtlas: mmu-Fam193a_0012
circAtlas: hsa-FAM193A_0010, CIRCpedia: HSA_CIRCpedia_48310
Human Ortholog IDs:
Mature spliced Sequence:
GGCCAAGATTTTCTCCTTCACTCATCTCTTGGGGGTTCCCAGCCTGAGACCAGTGGTGCTGGGAGGCTGGCCCTAGGCACACAGACCATGACCTCATCAGGGCTAGGCACCACGCCCTCAGATGCCTGTTCATGTGAGGCCTGCAGTGAACGCAGAGACATCTCAGCAGAGACAGAACGGGAACCACAACAACTGCAGAACTATTGGTCAGAAGTACGCTACATGGTCCGATGCATATACCGCCAGGCAGGGACCCCGCTGGCAGAAGATCAGGACCAGTCTCTGGTTCCCGACAAAGAGGGCGTGAAGGAGCTCGTGGATAGGCTCTGTGAGCGGGACCCCTATCAGCTCTACCAGCGGTTGGAGCAACAAGCCCGGGAATATGTGCTGGAGATGAAGGTCCGCCTGCTTCGGCAGCTCTCTGCTGCAGCCAAGGCCAAGGCACCGTCTGGCTTGCAGGGCCCACCTCAGGCACACCACTTTGTCTCCCTACTCCTGGAGGAGTATGCTGCCCTTTGCCAGGCAGCACGATCCATCAGTACCTTTCTTGGCACTCTGGAAAATGAACATTTGAAAAAGTTCCAGGTGACATGGGAACTGCATAACAAACATCTATTTGAAAATCTGGTCTTTTCAGAGCCACTTCTCCAGAGCAACTTGCCAGCACTGGTGTCTCAGATCAGGCTAGGAACCACCACACACGACACCTGCACTGAAGACATGTACAGCACCTTGCTGCAGAGGTACCAGCGTTCTGAGGAAGAGTTGCGCAAAGTTGCTGAGGAGTGGCTGGAGTGTCAGAAGAGGATCGATGCCTATGTGGATGAGCAGATGACAATGAAAACCAAACAGCGCATGTTAACAGAAGACTGGGAGATTTTTAAACAAAGGAGATTAATTGAAGAACAGTTGACTAATAAGAAAGTGGTTACTGGAGAGAACAACTTCACAGATACCAGGAGGCACATGTTGTCATCTCGGTTGAGCATGCCTGACTGTCCCAACTGCAACTACAGGCGAAGATGTGCTTGTGATGACTGCAGCCTCTCACACATCCTTACTTGTGGTATCATGGACACCCCGGTCACTGATGACATCCACATTCACCAGCTACCACTCCAAGTGGATTCTGCTCCCGACTATCTGTCTGAGATGCGCCCACCTAGTGTGTCATCAGCAAGCTCAGGGTCAGGTTCCAGCTCTCCCATCACAATTCAGCAACATCCTAGACTCATCCTCACAGACAATGGCTCTGCACCAACTTTTTGTAGTGATGATGAAGACGTCGCACCATTGTCAGCTAAGTTTGCTGACATTTATCCGTTGACCAACTACGATGATACCAATGTGGTAGCCAACATGAATGGAATCCACAGCGAACTGAATGGTGGTGGGGAAAACATGGCCCTGAAAGATGAGTCCCCTCAGGTAAGCAGCACCAGCCGTAGTTCTTCAGAGGCTGATGATGAAGATGCTGATGGTGAGAGTAGTGGGGAGCCCCCAGGAGCTCCCAAACAAGAGGAGGCCATAGGAAATGGTAACCCCAAGACAGAAGAGAGTAATGTGAACACTCCACCTCCATCCTACCCAGCTCAGCAGGCAGAACAAACACCGAACACTTGTGAATGCCATGTTTGTAAACAAGAAGCTTCTGGGCTACCAGCATCAGCAATGACTGCTGGAGCCCTGCCTCCTGGCCATCAGTTCCTGAGCCCAGAGAAACCAACACATCCTGCGCTTCACCTGTACCCCCACATCCACGGACATGTACCCTTGCATACTGTTCCACACCTGCCTCGACCGCTCATCCACCCCACCTTGTATCCAGCACCCCCCTTCACACACAGTAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCCACCCCACCTTGTATCCA
60.18
TGAGGTCATGGTCTGTGTGC
59.96
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TACTGTTCCACACCTGCCTC
59.31
TGAGGTCATGGTCTGTGTGC
59.96
169
PCR template sequence:
CCACATCCACGGACATGTACCCTTGCATACTGTTCCACACCTGCCTCGACCGCTCATCCACCCCACCTTGTATCCAGCACCCCCCTTCACACACAGTAAGGGCCAAGATTTTCTCCTTCACTCATCTCTTGGGGGTTCCCAGCCTGAGACCAGTGGTGCTGGGAGGCTGGCCCTAGGCACACAGACCATGACCTCATCAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
20
Interacting miRNAs (#binding sites)
mmu-miR-335-3p(3), mmu-miR-138-5p(2), mmu-miR-382-5p(2), mmu-miR-103-3p(1), mmu-miR-122-5p(1), mmu-miR-205-5p(1), mmu-miR-29b-3p(1), mmu-miR-29a-3p(1), mmu-miR-143-3p(1), mmu-miR-351-5p(1), mmu-miR-370-3p(1), mmu-miR-107-3p(1), mmu-miR-680(1), mmu-miR-29b-2-5p(1), mmu-miR-1187(1), mmu-miR-300-3p(1), mmu-miR-5101(1), mmu-miR-3061-5p(1), mmu-miR-574-5p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CACACACAGTAAGGGCCAAGATTTTC
siRNA sets
AAAATCTTGGCCCTTACTG,AATCTTGGCCCTTACTGTG,GAAAATCTTGGCCCTTACT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCFAM193A_1851_ORF_1
0.9362
0.263765065
1
3615
ORF sequence:
ATGACCTCATCAGGGCTAGGCACCACGCCCTCAGATGCCTGTTCATGTGAGGCCTGCAGTGAACGCAGAGACATCTCAGCAGAGACAGAACGGGAACCACAACAACTGCAGAACTATTGGTCAGAAGTACGCTACATGGTCCGATGCATATACCGCCAGGCAGGGACCCCGCTGGCAGAAGATCAGGACCAGTCTCTGGTTCCCGACAAAGAGGGCGTGAAGGAGCTCGTGGATAGGCTCTGTGAGCGGGACCCCTATCAGCTCTACCAGCGGTTGGAGCAACAAGCCCGGGAATATGTGCTGGAGATGAAGGTCCGCCTGCTTCGGCAGCTCTCTGCTGCAGCCAAGGCCAAGGCACCGTCTGGCTTGCAGGGCCCACCTCAGGCACACCACTTTGTCTCCCTACTCCTGGAGGAGTATGCTGCCCTTTGCCAGGCAGCACGATCCATCAGTACCTTTCTTGGCACTCTGGAAAATGAACATTTGAAAAAGTTCCAGGTGACATGGGAACTGCATAACAAACATCTATTTGAAAATCTGGTCTTTTCAGAGCCACTTCTCCAGAGCAACTTGCCAGCACTGGTGTCTCAGATCAGGCTAGGAACCACCACACACGACACCTGCACTGAAGACATGTACAGCACCTTGCTGCAGAGGTACCAGCGTTCTGAGGAAGAGTTGCGCAAAGTTGCTGAGGAGTGGCTGGAGTGTCAGAAGAGGATCGATGCCTATGTGGATGAGCAGATGACAATGAAAACCAAACAGCGCATGTTAACAGAAGACTGGGAGATTTTTAAACAAAGGAGATTAATTGAAGAACAGTTGACTAATAAGAAAGTGGTTACTGGAGAGAACAACTTCACAGATACCAGGAGGCACATGTTGTCATCTCGGTTGAGCATGCCTGACTGTCCCAACTGCAACTACAGGCGAAGATGTGCTTGTGATGACTGCAGCCTCTCACACATCCTTACTTGTGGTATCATGGACACCCCGGTCACTGATGACATCCACATTCACCAGCTACCACTCCAAGTGGATTCTGCTCCCGACTATCTGTCTGAGATGCGCCCACCTAGTGTGTCATCAGCAAGCTCAGGGTCAGGTTCCAGCTCTCCCATCACAATTCAGCAACATCCTAGACTCATCCTCACAGACAATGGCTCTGCACCAACTTTTTGTAGTGATGATGAAGACGTCGCACCATTGTCAGCTAAGTTTGCTGACATTTATCCGTTGACCAACTACGATGATACCAATGTGGTAGCCAACATGAATGGAATCCACAGCGAACTGAATGGTGGTGGGGAAAACATGGCCCTGAAAGATGAGTCCCCTCAGGTAAGCAGCACCAGCCGTAGTTCTTCAGAGGCTGATGATGAAGATGCTGATGGTGAGAGTAGTGGGGAGCCCCCAGGAGCTCCCAAACAAGAGGAGGCCATAGGAAATGGTAACCCCAAGACAGAAGAGAGTAATGTGAACACTCCACCTCCATCCTACCCAGCTCAGCAGGCAGAACAAACACCGAACACTTGTGAATGCCATGTTTGTAAACAAGAAGCTTCTGGGCTACCAGCATCAGCAATGACTGCTGGAGCCCTGCCTCCTGGCCATCAGTTCCTGAGCCCAGAGAAACCAACACATCCTGCGCTTCACCTGTACCCCCACATCCACGGACATGTACCCTTGCATACTGTTCCACACCTGCCTCGACCGCTCATCCACCCCACCTTGTATCCAGCACCCCCCTTCACACACAGTAAGGGCCAAGATTTTCTCCTTCACTCATCTCTTGGGGGTTCCCAGCCTGAGACCAGTGGTGCTGGGAGGCTGGCCCTAGGCACACAGACCATGACCTCATCAGGGCTAGGCACCACGCCCTCAGATGCCTGTTCATGTGAGGCCTGCAGTGAACGCAGAGACATCTCAGCAGAGACAGAACGGGAACCACAACAACTGCAGAACTATTGGTCAGAAGTACGCTACATGGTCCGATGCATATACCGCCAGGCAGGGACCCCGCTGGCAGAAGATCAGGACCAGTCTCTGGTTCCCGACAAAGAGGGCGTGAAGGAGCTCGTGGATAGGCTCTGTGAGCGGGACCCCTATCAGCTCTACCAGCGGTTGGAGCAACAAGCCCGGGAATATGTGCTGGAGATGAAGGTCCGCCTGCTTCGGCAGCTCTCTGCTGCAGCCAAGGCCAAGGCACCGTCTGGCTTGCAGGGCCCACCTCAGGCACACCACTTTGTCTCCCTACTCCTGGAGGAGTATGCTGCCCTTTGCCAGGCAGCACGATCCATCAGTACCTTTCTTGGCACTCTGGAAAATGAACATTTGAAAAAGTTCCAGGTGACATGGGAACTGCATAACAAACATCTATTTGAAAATCTGGTCTTTTCAGAGCCACTTCTCCAGAGCAACTTGCCAGCACTGGTGTCTCAGATCAGGCTAGGAACCACCACACACGACACCTGCACTGAAGACATGTACAGCACCTTGCTGCAGAGGTACCAGCGTTCTGAGGAAGAGTTGCGCAAAGTTGCTGAGGAGTGGCTGGAGTGTCAGAAGAGGATCGATGCCTATGTGGATGAGCAGATGACAATGAAAACCAAACAGCGCATGTTAACAGAAGACTGGGAGATTTTTAAACAAAGGAGATTAATTGAAGAACAGTTGACTAATAAGAAAGTGGTTACTGGAGAGAACAACTTCACAGATACCAGGAGGCACATGTTGTCATCTCGGTTGAGCATGCCTGACTGTCCCAACTGCAACTACAGGCGAAGATGTGCTTGTGATGACTGCAGCCTCTCACACATCCTTACTTGTGGTATCATGGACACCCCGGTCACTGATGACATCCACATTCACCAGCTACCACTCCAAGTGGATTCTGCTCCCGACTATCTGTCTGAGATGCGCCCACCTAGTGTGTCATCAGCAAGCTCAGGGTCAGGTTCCAGCTCTCCCATCACAATTCAGCAACATCCTAGACTCATCCTCACAGACAATGGCTCTGCACCAACTTTTTGTAGTGATGATGAAGACGTCGCACCATTGTCAGCTAAGTTTGCTGACATTTATCCGTTGACCAACTACGATGATACCAATGTGGTAGCCAACATGAATGGAATCCACAGCGAACTGAATGGTGGTGGGGAAAACATGGCCCTGAAAGATGAGTCCCCTCAGGTAAGCAGCACCAGCCGTAGTTCTTCAGAGGCTGATGATGAAGATGCTGATGGTGAGAGTAGTGGGGAGCCCCCAGGAGCTCCCAAACAAGAGGAGGCCATAGGAAATGGTAACCCCAAGACAGAAGAGAGTAATGTGAACACTCCACCTCCATCCTACCCAGCTCAGCAGGCAGAACAAACACCGAACACTTGTGAATGCCATGTTTGTAAACAAGAAGCTTCTGGGCTACCAGCATCAGCAATGACTGCTGGAGCCCTGCCTCCTGGCCATCAGTTCCTGAGCCCAGAGAAACCAACACATCCTGCGCTTCACCTGTACCCCCACATCCACGGACATGTACCCTTGCATACTGTTCCACACCTGCCTCGACCGCTCATCCACCCCACCTTGTATCCAGCACCCCCCTTCACACACAGTAAG
Peptide sequence:
MTSSGLGTTPSDACSCEACSERRDISAETEREPQQLQNYWSEVRYMVRCIYRQAGTPLAEDQDQSLVPDKEGVKELVDRLCERDPYQLYQRLEQQAREYVLEMKVRLLRQLSAAAKAKAPSGLQGPPQAHHFVSLLLEEYAALCQAARSISTFLGTLENEHLKKFQVTWELHNKHLFENLVFSEPLLQSNLPALVSQIRLGTTTHDTCTEDMYSTLLQRYQRSEEELRKVAEEWLECQKRIDAYVDEQMTMKTKQRMLTEDWEIFKQRRLIEEQLTNKKVVTGENNFTDTRRHMLSSRLSMPDCPNCNYRRRCACDDCSLSHILTCGIMDTPVTDDIHIHQLPLQVDSAPDYLSEMRPPSVSSASSGSGSSSPITIQQHPRLILTDNGSAPTFCSDDEDVAPLSAKFADIYPLTNYDDTNVVANMNGIHSELNGGGENMALKDESPQVSSTSRSSSEADDEDADGESSGEPPGAPKQEEAIGNGNPKTEESNVNTPPPSYPAQQAEQTPNTCECHVCKQEASGLPASAMTAGALPPGHQFLSPEKPTHPALHLYPHIHGHVPLHTVPHLPRPLIHPTLYPAPPFTHSKGQDFLLHSSLGGSQPETSGAGRLALGTQTMTSSGLGTTPSDACSCEACSERRDISAETEREPQQLQNYWSEVRYMVRCIYRQAGTPLAEDQDQSLVPDKEGVKELVDRLCERDPYQLYQRLEQQAREYVLEMKVRLLRQLSAAAKAKAPSGLQGPPQAHHFVSLLLEEYAALCQAARSISTFLGTLENEHLKKFQVTWELHNKHLFENLVFSEPLLQSNLPALVSQIRLGTTTHDTCTEDMYSTLLQRYQRSEEELRKVAEEWLECQKRIDAYVDEQMTMKTKQRMLTEDWEIFKQRRLIEEQLTNKKVVTGENNFTDTRRHMLSSRLSMPDCPNCNYRRRCACDDCSLSHILTCGIMDTPVTDDIHIHQLPLQVDSAPDYLSEMRPPSVSSASSGSGSSSPITIQQHPRLILTDNGSAPTFCSDDEDVAPLSAKFADIYPLTNYDDTNVVANMNGIHSELNGGGENMALKDESPQVSSTSRSSSEADDEDADGESSGEPPGAPKQEEAIGNGNPKTEESNVNTPPPSYPAQQAEQTPNTCECHVCKQEASGLPASAMTAGALPPGHQFLSPEKPTHPALHLYPHIHGHVPLHTVPHLPRPLIHPTLYPAPPFTHSK
IRESfinder result
IRESfinder score
0.46212508
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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