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mmu_circTnrc6c_3430
Basic information of circular RNA
PanCircBase ID:
mmu_circTnrc6c_3430
mm39_Chr. Position ID:
chr11|117591550|117624602|+
Gene name:
Tnrc6c
Transcript:
ENSMUST00000026658.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
2,3,4,5,6,7
Exon/intron offsets:
0,1654,13401,20225,31443,32885
Genomic length:
33052
Exon/intron sizes in nt:
100,22,327,2601,213,167
Flanking exon/introns:
chr11:117545512-117591550|chr11:117624602-117626797
Splice length:
3430
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GGTAAAAGAACAGGAAACACAAGAAGAGGAACGTTTGATGGAAGAAAAGAAAAAGAAAAAGCAGGAAGACAAGAAAAAGAAGGAAGGTGCTCAGAAAAAGGCTGCTGATCAAAAAACCAAAGTGCCAGAACTTACTAAGACCTGTTCAAGCCAGCCCCAACCTGCCGGTACCAGTCCCAGTACTTCCACCAGCACTATTTCTAGCGGCAGCAATGGCAAACGTGCATCTGCCTGTGGCCAGCAGCCAGCTGCATCCCGTTACCTGCCTCGGGAGGTGCCTCCACGCTTTCGCCAGCAAGAACAGAAGCAGCTGTTAAAGAGAGGCCAGCCATTGCCCACAGGGGGTCTGACCAGTTTGAACTCAGCACAGGCTGCTGGACCTGCAGGGGCCAGCCCTCCTCCCCTCCCTGGAGCTGGGGCACAGCAACATCCCAGCAAGCTCCAACAAGATCTTGGTCACAGTGGATTGGTAGATCATTATGAAAATTCCCACTGGGGACAGCATCCCTCTTACAGAAGTGAAGCCAACTGCAGCTGGGATAAAGTGATAATAGACAGGACTGAGCCGGAGGTGTGGCCGTCCATCCCAGTAACTGAGACGGAATCTGCCTCAGAATGTCCTACCGACACTGACTCTGCCTCCAACTGTGGCTCAGAGAACAGTAGCATGGCTACAGGGAGTGCCCAGAGCAGCTTCCCGAGCCACCTGAAGAAGACAAACGGCAGTCATGGCACCAATGGCGCACTCGTCCAAAGCCCTTCTAACCAGAGTGCCCTTGGGGCAGGAGGAACCAATGGGAACGGGGGCGTGGCCAGAGTGTGGGGTGTAGCCACAAGCTCCAGCTCTGGCCTGGCTCACTGCTCTGTTGGTGGTGGAGATGGGAAAATGGACAACATGATCGGAGATGGGAGAAGTCAGAATTGTTGGGGTGCTTCTAACTCCAATGCGGGCATTAATCTCAACCTTAATCCAAATGCCAACCCAGCTGCCTGGCCTGTACTCGGGCATGAAGGAACTGTGGCAACAGGCAACCCTTCCAGTATTTGCAGTCCAGTCAGTGCCATAGGTCAGAATATGGGCAGCCAGAATGGGAACCCAGTGGGCGCCCTAGGTGCCTGGGGAAACTTGCTGCCCCAAGAGAGCGCAGAACCACAGACATCCACTTCTCAGAATGTGTCTTTCAGCGTACAACCTCAGAACCTTAACACTGATGGACCAAATAACACTAACCCCATGAACTCTTCACCAAACCCTATCAATGCAATGCAGACAAACGGACTGCCAAACTGGGGCATGGCTGTTGGTATGGGGGCCATCATCCCACCCCACCTGCAAGGCCTTCCTGGTGCTAACGGATCATCAGTCTCTCAAGGCAGTGGGAGTGGTGGGGAAGGAATGGGCAGTTCTGTGTGGGGACTGTCCCCTGGTAACCCTGCCACAGGAAGTACCAATTGTGGGTTCAGTCAAGGGAATGGAGACACTGTGAACTCAGCATTAAGTGCTAAGCAGAACGGATCCAGCAGTGCTGTGCAGAAGGAAGGGAATGGAGGGAACGCCTGGGACTCAGGGCCTCCTGCAGGGCCTGGCATCCTTGCCTGGGGAAGGGGCAGTGGCACCAATGGCATTGGTAATATCCATTCAGGAGCTTGGGGCCATCCCAGCCGAAGTTCTTCTAATGGTGTGAATGGGGAGTGGGGGAAGCCCCCAAACCAGCATTCCAGTAGTGACATCAGTGGGAAAGGATCAACAGGGTGGGACAGTGCCAGTGCTGCCAGCCAGACCCCTGCCCTGCAGCCTGGCAGTGAACACATGAACTCGTGGGCCAAAGCCACATCTTCTGGAACTACAGCAAGTGAAGGAAGCAGTGATGGGTCCGGCAATCACAATGAAGGAAGCACTGGGAGGGAAGGGACAGGAGAGGGCCGGAGGCGAGACAAAGGGGTTCTAGACCAAGGGCACATCCAGTTGCCAAGGAATGACCTTGACCCAAGAGTTCTGTCTAACAGTGGTTGGGGACAGACTCCCGTAAAGCAAAACACTGCCTGGGAATTTGAAGAGTCCCCTAGGTCTGAAAGGAAAAATGACAATGGGACAGAGGCCTGGGGTAGTATAGCTACTCAGCCTTCAAACTCAGGGGGGAAGACTGATGGGTCCATCATGAACAGTACAAATACCTCTTCAGTATCGGGGTGGGTCAGCTCACCACCTGCCGCCGTGCCAGCAAACACAAGCTGGGGAGACAGCAACAACAAAGCGCCAAGTGGCCCAGGAGTTTGGGGGGACTCAATAAGCTCTACTGCTGTTAACAATGCTGCTGCCACCAAGAGTGGCCATGCTTGGAGTGGGACTGTAAACCAAGAGGACAAATCACCCACCTGGGGTGAGCCTCAGAAGCCCAAATCCCAAAACTGGGGAGATGGACAAAGAGCAAACCCAGCCTGGAGCACAGGGGCAGGAGACTGGGCAGATTCATCATCTGTCCTTGGACATCTAGGGGATGGAAAGAAAAATGGATCTGGATGGGATGCTGATGGTAATAGGTCAGGGTCTGGTTGGAATGATGCCACGAGATGTGGGACCAGTGGCTGGGGCAGTGGCACAAATGCTAAGGTGAATCCAGGTACAAACTGGGGGGAGTCTCTCAAGCCTGGTCCCCAGCAGAACTGGGCTCATAAGCCCCAAGACAACAATGTGAGTAACTGGGGAGGAGCTGCTTCTGTTAAGCAGACAGGGACAGGGTGGATTGGGGGGCCACTGCCAGTCAAGCAGAAGGACAGCAGTGAGGCGACTGGCTGGGAGGAGCCTTCCCCACCCTCCATCCGACGCAAAATGGAAATTGATGATGGTACCTCAGCTTGGGGGGACCCAAGCACCTACAACAATAAAACTGTAAACATGTGGGACAGAAACAATCCAGTCATCCAGAGCAGTACCACAGCCCCTGCCACCCCCACGACCCCCACCTCGAGCAGCACCACACACCGGGCCGAGACGCCGCCTTCACACCAGGCTGGCACTCAGCTGAATCGGTCACCACTGCTCGGGCCAGTTTCATCCGGCTGGGGAGAGATGCCCAGTGTTCACTCCAAGGCCGAGAACTCCTGGGGAGAGCCATCTTCCCCTTGTACCCTGGTGGACAATGGCACAGCAGCGTGGGGGAAGCCTCCCAGCAGTGGCAGTGGGTGGGATCATCCTGCTGAGCCGGTGGTGCCATTTGGAAGAGCCAGCGCTCCTGCTGCCGCCCCAGCCCTGTGCAAACCAGCTTCCAAATCTATGCAAGAAGGCTGGGGCAGCGGTGCGGATGAAATGAACCTGGGCACCAGCCAGTGGGAGGATGAGGACGGGGACATGTGGAACAACGCTGCCTCCCAAGAAAGCAGCTCATCCTGCAGCTCCTGGGGCAACACCTCAAAAAAAGGACTTCAGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCTCCCAAGAAAGCAGCTCA
59.96
TCTGAGCACCTTCCTTCTTT
56.37
160
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCTCCCAAGAAAGCAGCTCA
59.96
TTCTGAGCACCTTCCTTCTT
56.37
161
PCR template sequence:
GGAGGATGAGGACGGGGACATGTGGAACAACGCTGCCTCCCAAGAAAGCAGCTCATCCTGCAGCTCCTGGGGCAACACCTCAAAAAAAGGACTTCAGAAGGGTAAAAGAACAGGAAACACAAGAAGAGGAACGTTTGATGGAAGAAAAGAAAAAGAAAAAGCAGGAAGACAAGAAAAAGAAGGAAGGTGCTCAGAAAAAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
48
Interacting miRNAs (#binding sites)
mmu-miR-324-3p(4), mmu-miR-328-3p(2), mmu-miR-24-3p(2), mmu-miR-136-5p(2), mmu-miR-192-5p(2), mmu-miR-215-5p(2), mmu-miR-207(2), mmu-miR-669d-5p(2), mmu-miR-9-5p(1), mmu-miR-155-5p(1), mmu-miR-134-5p(1), mmu-miR-16-5p(1), mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-103-3p(1), mmu-miR-34c-5p(1), mmu-miR-34a-5p(1), mmu-miR-205-5p(1), mmu-miR-211-5p(1), mmu-miR-33-5p(1), mmu-miR-709(1), mmu-miR-320-3p(1), mmu-miR-324-5p(1), mmu-miR-326-3p(1), mmu-miR-125b-5p(1), mmu-miR-138-5p(1), mmu-miR-339-5p(1), mmu-miR-10b-5p(1), mmu-miR-10a-5p(1), mmu-miR-381-3p(1), mmu-miR-128-3p(1), mmu-miR-433-3p(1), mmu-miR-125a-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-182-5p(1), mmu-miR-183-5p(1), mmu-miR-362-5p(1), mmu-miR-34b-5p(1), mmu-miR-107-3p(1), mmu-miR-325-3p(1), mmu-miR-1198-5p(1), mmu-miR-5101(1), mmu-miR-335-3p(1), mmu-miR-188-3p(1), mmu-miR-3470b(1), mmu-miR-1199-5p(1), mmu-miR-1904(1), mmu-miR-3105-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGGACTTCAGAAGGGTAAAAGAACAG
siRNA sets
CTGTTCTTTTACCCTTCTG, TCTTTTACCCTTCTGAAGT, TTTACCCTTCTGAAGTCCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTNRC6C_3430_ORF_1
1.0629
0.164181654
1
3525
ORF sequence:
ATGAGGACGGGGACATGTGGAACAACGCTGCCTCCCAAGAAAGCAGCTCATCCTGCAGCTCCTGGGGCAACACCTCAAAAAAAGGACTTCAGAAGGGTAAAAGAACAGGAAACACAAGAAGAGGAACGTTTGATGGAAGAAAAGAAAAAGAAAAAGCAGGAAGACAAGAAAAAGAAGGAAGGTGCTCAGAAAAAGGCTGCTGATCAAAAAACCAAAGTGCCAGAACTTACTAAGACCTGTTCAAGCCAGCCCCAACCTGCCGGTACCAGTCCCAGTACTTCCACCAGCACTATTTCTAGCGGCAGCAATGGCAAACGTGCATCTGCCTGTGGCCAGCAGCCAGCTGCATCCCGTTACCTGCCTCGGGAGGTGCCTCCACGCTTTCGCCAGCAAGAACAGAAGCAGCTGTTAAAGAGAGGCCAGCCATTGCCCACAGGGGGTCTGACCAGTTTGAACTCAGCACAGGCTGCTGGACCTGCAGGGGCCAGCCCTCCTCCCCTCCCTGGAGCTGGGGCACAGCAACATCCCAGCAAGCTCCAACAAGATCTTGGTCACAGTGGATTGGTAGATCATTATGAAAATTCCCACTGGGGACAGCATCCCTCTTACAGAAGTGAAGCCAACTGCAGCTGGGATAAAGTGATAATAGACAGGACTGAGCCGGAGGTGTGGCCGTCCATCCCAGTAACTGAGACGGAATCTGCCTCAGAATGTCCTACCGACACTGACTCTGCCTCCAACTGTGGCTCAGAGAACAGTAGCATGGCTACAGGGAGTGCCCAGAGCAGCTTCCCGAGCCACCTGAAGAAGACAAACGGCAGTCATGGCACCAATGGCGCACTCGTCCAAAGCCCTTCTAACCAGAGTGCCCTTGGGGCAGGAGGAACCAATGGGAACGGGGGCGTGGCCAGAGTGTGGGGTGTAGCCACAAGCTCCAGCTCTGGCCTGGCTCACTGCTCTGTTGGTGGTGGAGATGGGAAAATGGACAACATGATCGGAGATGGGAGAAGTCAGAATTGTTGGGGTGCTTCTAACTCCAATGCGGGCATTAATCTCAACCTTAATCCAAATGCCAACCCAGCTGCCTGGCCTGTACTCGGGCATGAAGGAACTGTGGCAACAGGCAACCCTTCCAGTATTTGCAGTCCAGTCAGTGCCATAGGTCAGAATATGGGCAGCCAGAATGGGAACCCAGTGGGCGCCCTAGGTGCCTGGGGAAACTTGCTGCCCCAAGAGAGCGCAGAACCACAGACATCCACTTCTCAGAATGTGTCTTTCAGCGTACAACCTCAGAACCTTAACACTGATGGACCAAATAACACTAACCCCATGAACTCTTCACCAAACCCTATCAATGCAATGCAGACAAACGGACTGCCAAACTGGGGCATGGCTGTTGGTATGGGGGCCATCATCCCACCCCACCTGCAAGGCCTTCCTGGTGCTAACGGATCATCAGTCTCTCAAGGCAGTGGGAGTGGTGGGGAAGGAATGGGCAGTTCTGTGTGGGGACTGTCCCCTGGTAACCCTGCCACAGGAAGTACCAATTGTGGGTTCAGTCAAGGGAATGGAGACACTGTGAACTCAGCATTAAGTGCTAAGCAGAACGGATCCAGCAGTGCTGTGCAGAAGGAAGGGAATGGAGGGAACGCCTGGGACTCAGGGCCTCCTGCAGGGCCTGGCATCCTTGCCTGGGGAAGGGGCAGTGGCACCAATGGCATTGGTAATATCCATTCAGGAGCTTGGGGCCATCCCAGCCGAAGTTCTTCTAATGGTGTGAATGGGGAGTGGGGGAAGCCCCCAAACCAGCATTCCAGTAGTGACATCAGTGGGAAAGGATCAACAGGGTGGGACAGTGCCAGTGCTGCCAGCCAGACCCCTGCCCTGCAGCCTGGCAGTGAACACATGAACTCGTGGGCCAAAGCCACATCTTCTGGAACTACAGCAAGTGAAGGAAGCAGTGATGGGTCCGGCAATCACAATGAAGGAAGCACTGGGAGGGAAGGGACAGGAGAGGGCCGGAGGCGAGACAAAGGGGTTCTAGACCAAGGGCACATCCAGTTGCCAAGGAATGACCTTGACCCAAGAGTTCTGTCTAACAGTGGTTGGGGACAGACTCCCGTAAAGCAAAACACTGCCTGGGAATTTGAAGAGTCCCCTAGGTCTGAAAGGAAAAATGACAATGGGACAGAGGCCTGGGGTAGTATAGCTACTCAGCCTTCAAACTCAGGGGGGAAGACTGATGGGTCCATCATGAACAGTACAAATACCTCTTCAGTATCGGGGTGGGTCAGCTCACCACCTGCCGCCGTGCCAGCAAACACAAGCTGGGGAGACAGCAACAACAAAGCGCCAAGTGGCCCAGGAGTTTGGGGGGACTCAATAAGCTCTACTGCTGTTAACAATGCTGCTGCCACCAAGAGTGGCCATGCTTGGAGTGGGACTGTAAACCAAGAGGACAAATCACCCACCTGGGGTGAGCCTCAGAAGCCCAAATCCCAAAACTGGGGAGATGGACAAAGAGCAAACCCAGCCTGGAGCACAGGGGCAGGAGACTGGGCAGATTCATCATCTGTCCTTGGACATCTAGGGGATGGAAAGAAAAATGGATCTGGATGGGATGCTGATGGTAATAGGTCAGGGTCTGGTTGGAATGATGCCACGAGATGTGGGACCAGTGGCTGGGGCAGTGGCACAAATGCTAAGGTGAATCCAGGTACAAACTGGGGGGAGTCTCTCAAGCCTGGTCCCCAGCAGAACTGGGCTCATAAGCCCCAAGACAACAATGTGAGTAACTGGGGAGGAGCTGCTTCTGTTAAGCAGACAGGGACAGGGTGGATTGGGGGGCCACTGCCAGTCAAGCAGAAGGACAGCAGTGAGGCGACTGGCTGGGAGGAGCCTTCCCCACCCTCCATCCGACGCAAAATGGAAATTGATGATGGTACCTCAGCTTGGGGGGACCCAAGCACCTACAACAATAAAACTGTAAACATGTGGGACAGAAACAATCCAGTCATCCAGAGCAGTACCACAGCCCCTGCCACCCCCACGACCCCCACCTCGAGCAGCACCACACACCGGGCCGAGACGCCGCCTTCACACCAGGCTGGCACTCAGCTGAATCGGTCACCACTGCTCGGGCCAGTTTCATCCGGCTGGGGAGAGATGCCCAGTGTTCACTCCAAGGCCGAGAACTCCTGGGGAGAGCCATCTTCCCCTTGTACCCTGGTGGACAATGGCACAGCAGCGTGGGGGAAGCCTCCCAGCAGTGGCAGTGGGTGGGATCATCCTGCTGAGCCGGTGGTGCCATTTGGAAGAGCCAGCGCTCCTGCTGCCGCCCCAGCCCTGTGCAAACCAGCTTCCAAATCTATGCAAGAAGGCTGGGGCAGCGGTGCGGATGAAATGAACCTGGGCACCAGCCAGTGGGAGGATGAGGACGGGGACATGTGGAACAACGCTGCCTCCCAAGAAAGCAGCTCATCCTGCAGCTCCTGGGGCAACACCTCAAAAAAAGGACTTCAGAAG
Peptide sequence:
MRTGTCGTTLPPKKAAHPAAPGATPQKKDFRRVKEQETQEEERLMEEKKKKKQEDKKKKEGAQKKAADQKTKVPELTKTCSSQPQPAGTSPSTSTSTISSGSNGKRASACGQQPAASRYLPREVPPRFRQQEQKQLLKRGQPLPTGGLTSLNSAQAAGPAGASPPPLPGAGAQQHPSKLQQDLGHSGLVDHYENSHWGQHPSYRSEANCSWDKVIIDRTEPEVWPSIPVTETESASECPTDTDSASNCGSENSSMATGSAQSSFPSHLKKTNGSHGTNGALVQSPSNQSALGAGGTNGNGGVARVWGVATSSSSGLAHCSVGGGDGKMDNMIGDGRSQNCWGASNSNAGINLNLNPNANPAAWPVLGHEGTVATGNPSSICSPVSAIGQNMGSQNGNPVGALGAWGNLLPQESAEPQTSTSQNVSFSVQPQNLNTDGPNNTNPMNSSPNPINAMQTNGLPNWGMAVGMGAIIPPHLQGLPGANGSSVSQGSGSGGEGMGSSVWGLSPGNPATGSTNCGFSQGNGDTVNSALSAKQNGSSSAVQKEGNGGNAWDSGPPAGPGILAWGRGSGTNGIGNIHSGAWGHPSRSSSNGVNGEWGKPPNQHSSSDISGKGSTGWDSASAASQTPALQPGSEHMNSWAKATSSGTTASEGSSDGSGNHNEGSTGREGTGEGRRRDKGVLDQGHIQLPRNDLDPRVLSNSGWGQTPVKQNTAWEFEESPRSERKNDNGTEAWGSIATQPSNSGGKTDGSIMNSTNTSSVSGWVSSPPAAVPANTSWGDSNNKAPSGPGVWGDSISSTAVNNAAATKSGHAWSGTVNQEDKSPTWGEPQKPKSQNWGDGQRANPAWSTGAGDWADSSSVLGHLGDGKKNGSGWDADGNRSGSGWNDATRCGTSGWGSGTNAKVNPGTNWGESLKPGPQQNWAHKPQDNNVSNWGGAASVKQTGTGWIGGPLPVKQKDSSEATGWEEPSPPSIRRKMEIDDGTSAWGDPSTYNNKTVNMWDRNNPVIQSSTTAPATPTTPTSSSTTHRAETPPSHQAGTQLNRSPLLGPVSSGWGEMPSVHSKAENSWGEPSSPCTLVDNGTAAWGKPPSSGSGWDHPAEPVVPFGRASAPAAAPALCKPASKSMQEGWGSGADEMNLGTSQWEDEDGDMWNNAASQESSSSCSSWGNTSKKGLQK
IRESfinder result
IRESfinder score
0.420471401
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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