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mmu_circChd6_2563
Basic information of circular RNA
PanCircBase ID:
mmu_circChd6_2563
mm39_Chr. Position ID:
chr2|160823494|160863008|-
Gene name:
Chd6
Transcript:
ENSMUST00000039782.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
15
Exon/intron indexes:
25,24,23,22,21,20,19,18,17,16,15,14,13,12,11
Exon/intron offsets:
0,1049,1483,2088,2883,6682,8670,10540,26780,31447,32509,35601,36451,37877,39392
Genomic length:
39514
Exon/intron sizes in nt:
1,04,90,16,02,00,20,31,00,00,00,00,00,00,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr2:160821418-160823494|chr2:160863008-160867858
Splice length:
2563
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GAACGACCTGCCTCTGATGCGTGGCAGAAACTGGAGACATCCCGTGAGTATAGGAACAGTAACCGGCTGCGAGAGTACCAACTCGAGGGGATGAACTGGCTTCTTTTCAACTGGTACAACAGAAAAAACTGTATATTGGCTGATGAAATGGGCCTAGGGAAAACCATCCAGTCCATCGCATTCCTTTCAGAAATCTTTGTCAGAGGAATCCACGGCCCCTTTCTCATCATTGCCCCACTTTCCACCATCACTAACTGGGAGCGAGAATTCCGGACATGGACGGAGATGAATGCTATTGTGTACCACGGCAGCCAGATCAGCAGGCAGATGATCCAGCAGTACGAAATGGTATACAGAGATGCACAGGGAAACCCCCTTTCAGGAGTCTTCAAGTTCCACGTCGTCATCACAACGTTTGAGATGATCCTGGCAGATTGCCCAGAGCTGAAGAAAATTCACTGGAGCTGTGTGATAATTGATGAGGCCCACAGACTGAAGAATAGGAACTGCAAACTTCTGGAAGGGTTAAAGCTCATGGCCCTGGAACACAAAGTGCTGCTCACAGGAACACCCTTGCAGAACTCTGTGGAAGAGCTCTTCAGTTTGCTTAACTTTCTGGAGCCCTCGCAGTTCCCTTCAGAGACTGCCTTCTTAGAGGAGTTTGGTGATCTCAAAACAGAAGAACAGGTAAAGAAATTGCAGTCTATCCTAAAACCAATGATGCTTCGGCGCCTGAAAGATGATGTGGAGAAGAACCTTGCTCCTAAGCAAGAGACCATCATTGAAGTAGAACTGACCAATATCCAGAAAAAGTACTATCGTGCTATCCTAGAGAAAAACTTTTCCTTCCTGACCAAAGGTGCAAATCAACACAACATGCCCAATCTTATCAATACTATGATGGAGCTCAGAAAATGCTGTAACCACCCCTACCTGATCAATGGGGCCGAGGAAAAGATTCTGGAAGATTTCAGAAAAGCGCACAGCTCCGAAGCCTCTGACTTCCAGCTGCAGGCCATGATCCAGGCGGCCGGGAAGCTGGTGCTGATTGACAAGCTTCTCCCCAAGCTCATTGCCGGGGGCCACAAAGTGCTCATCTTCTCGCAGATGGTGCGCTGCCTCGACATCCTGGAAGATTATCTCATCCAGAGGAGATACACCTATGAGCGAATTGATGGGCGAGTACGGGGAAACCTGCGCCAGGCAGCCATCGACCGGTTCTGTAAGCCAGACTCAGACCGCTTTGTCTTTCTTCTGTGCACCAGAGCGGGAGGCCTGGGAATCAATCTCACAGCTGCTGATACCTGCATCATATTTGATTCTGACTGGAACCCACAAAATGACTTGCAGGCTCAGGCCCGATGTCATCGTATAGGCCAGAGCAAAGCCGTGAAGGTATATCGCCTAATCACTCGAAACTCCTATGAGCGGGAAATGTTTGACAAGGCCAGCCTGAAGCTGGGCCTGGACAAGGCTATTCTTCAGGACATCAACCGAAAGGGCAGCACCAATGGAGTACAGCAGCTCTCAAAAATGGAAGTGGAGGATTTGCTCCGGAAAGGTGCTTATGGGGCTTTAATGGACGAGGAAGACGAAGGCTCCAAGTTCTGTGAGGAAGATATAGACCAGATCCTGCAGAGAAGAACCCACACCATCACCATCCAGTCAGAAGGCAAGGGGTCCACTTTTGCCAAGGCTAGTTTCGTGGCTTCAGGAAACAGAACAGATATTTCCTTGGATGACCCTAATTTTTGGCAGAAATGGGCTAAAATAGCTGAATTAGACACTGAAGCAAATAATGAAAAGGAAAGCTTAGTGATTGACCGGCCGCGTGTGAGGAAGCAGACCAAGCACTACAACTCTTTTGAGGAGGACGAGCTCATGGAGTTCTCAGAGTTAGACAGCGACTCAGACGAAAGGCCCACACGGTCCAGACGCCTCAGCGACAGAGCCCGACGCTACCTCCGCGCTGAGTGCTTCCGAGTGGAGAAGAACCTGCTCATCTTTGGCTGGGGCCGGTGGAAGGACATCCTGACTCACGGGCGATTCAAGTGGCCCCTGAATGAGAAGGATATGGAGATGATTTGCAGGGCTCTGCTGGTGTACTGTGTCAAGCATTACAAAGGGGATGAGAAAATCAAAAGTTTTATTTGGGAACTAATCACACCTTCCAAAGACGGGCAAGTTCAGACCCTCCAGAACCACTCAGGCTTGTCTGCCCCAGTCCCCAGAGGGAGGAAAGGAAAAAAGACAAAAAACCAGCTCTTGCTCCCAGAACTGAAGAATGCAGACTGGCTGGCCACCTGCAATCCTGAGGTGGTCTTACATGATGATGGATACAAGAAACACCTCAAACAGCATTGCAATAAGGTGCTTTTGAGAGTCCGGATGCTGTACTACCTAAAAGCTGAAATACTGGGAGAAGCAGCTGATAAAGCATTCGAGGGAACTCCTGCCAGAGAGCTGGATGTGCTTCTGCCTGACATTGACTATGTGGAGATCCCAGTGGATTGGTGGGACGCTGAAGCTGATAAGTCCCTTCTCATTGGCGTGTTCAAGCACG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTGGATGTGCTTCTGCCTGA
60.04
GCAGCCGGTTACTGTTCCTA
59.75
170
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTGGATGTGCTTCTGCCTGA
60.04
GTACTCTCGCAGCCGGTTAC
60.53
178
PCR template sequence:
CTGGATGTGCTTCTGCCTGACATTGACTATGTGGAGATCCCAGTGGATTGGTGGGACGCTGAAGCTGATAAGTCCCTTCTCATTGGCGTGTTCAAGCACGGAACGACCTGCCTCTGATGCGTGGCAGAAACTGGAGACATCCCGTGAGTATAGGAACAGTAACCGGCTGCGAGAGTACCAACTCGAGGGGATGAACTGGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
14
Interacting miRNAs (#binding sites)
mmu-miR-15a-5p(1), mmu-let-7b-5p(1), mmu-miR-211-5p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-148b-3p(1), mmu-miR-148a-3p(1), mmu-miR-324-5p(1), mmu-miR-181b-5p(1), mmu-miR-136-5p(1), mmu-miR-182-5p(1), mmu-miR-370-3p(1), mmu-miR-335-3p(1), mmu-miR-1199-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GTGTTCAAGCACGGAACGACCTGCCT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCHD6_2563_ORF_1
1.1488
0.33454663
0.99999997
2658
ORF sequence:
ATGTGCTTCTGCCTGACATTGACTATGTGGAGATCCCAGTGGATTGGTGGGACGCTGAAGCTGATAAGTCCCTTCTCATTGGCGTGTTCAAGCACGGAACGACCTGCCTCTGATGCGTGGCAGAAACTGGAGACATCCCGTGAGTATAGGAACAGTAACCGGCTGCGAGAGTACCAACTCGAGGGGATGAACTGGCTTCTTTTCAACTGGTACAACAGAAAAAACTGTATATTGGCTGATGAAATGGGCCTAGGGAAAACCATCCAGTCCATCGCATTCCTTTCAGAAATCTTTGTCAGAGGAATCCACGGCCCCTTTCTCATCATTGCCCCACTTTCCACCATCACTAACTGGGAGCGAGAATTCCGGACATGGACGGAGATGAATGCTATTGTGTACCACGGCAGCCAGATCAGCAGGCAGATGATCCAGCAGTACGAAATGGTATACAGAGATGCACAGGGAAACCCCCTTTCAGGAGTCTTCAAGTTCCACGTCGTCATCACAACGTTTGAGATGATCCTGGCAGATTGCCCAGAGCTGAAGAAAATTCACTGGAGCTGTGTGATAATTGATGAGGCCCACAGACTGAAGAATAGGAACTGCAAACTTCTGGAAGGGTTAAAGCTCATGGCCCTGGAACACAAAGTGCTGCTCACAGGAACACCCTTGCAGAACTCTGTGGAAGAGCTCTTCAGTTTGCTTAACTTTCTGGAGCCCTCGCAGTTCCCTTCAGAGACTGCCTTCTTAGAGGAGTTTGGTGATCTCAAAACAGAAGAACAGGTAAAGAAATTGCAGTCTATCCTAAAACCAATGATGCTTCGGCGCCTGAAAGATGATGTGGAGAAGAACCTTGCTCCTAAGCAAGAGACCATCATTGAAGTAGAACTGACCAATATCCAGAAAAAGTACTATCGTGCTATCCTAGAGAAAAACTTTTCCTTCCTGACCAAAGGTGCAAATCAACACAACATGCCCAATCTTATCAATACTATGATGGAGCTCAGAAAATGCTGTAACCACCCCTACCTGATCAATGGGGCCGAGGAAAAGATTCTGGAAGATTTCAGAAAAGCGCACAGCTCCGAAGCCTCTGACTTCCAGCTGCAGGCCATGATCCAGGCGGCCGGGAAGCTGGTGCTGATTGACAAGCTTCTCCCCAAGCTCATTGCCGGGGGCCACAAAGTGCTCATCTTCTCGCAGATGGTGCGCTGCCTCGACATCCTGGAAGATTATCTCATCCAGAGGAGATACACCTATGAGCGAATTGATGGGCGAGTACGGGGAAACCTGCGCCAGGCAGCCATCGACCGGTTCTGTAAGCCAGACTCAGACCGCTTTGTCTTTCTTCTGTGCACCAGAGCGGGAGGCCTGGGAATCAATCTCACAGCTGCTGATACCTGCATCATATTTGATTCTGACTGGAACCCACAAAATGACTTGCAGGCTCAGGCCCGATGTCATCGTATAGGCCAGAGCAAAGCCGTGAAGGTATATCGCCTAATCACTCGAAACTCCTATGAGCGGGAAATGTTTGACAAGGCCAGCCTGAAGCTGGGCCTGGACAAGGCTATTCTTCAGGACATCAACCGAAAGGGCAGCACCAATGGAGTACAGCAGCTCTCAAAAATGGAAGTGGAGGATTTGCTCCGGAAAGGTGCTTATGGGGCTTTAATGGACGAGGAAGACGAAGGCTCCAAGTTCTGTGAGGAAGATATAGACCAGATCCTGCAGAGAAGAACCCACACCATCACCATCCAGTCAGAAGGCAAGGGGTCCACTTTTGCCAAGGCTAGTTTCGTGGCTTCAGGAAACAGAACAGATATTTCCTTGGATGACCCTAATTTTTGGCAGAAATGGGCTAAAATAGCTGAATTAGACACTGAAGCAAATAATGAAAAGGAAAGCTTAGTGATTGACCGGCCGCGTGTGAGGAAGCAGACCAAGCACTACAACTCTTTTGAGGAGGACGAGCTCATGGAGTTCTCAGAGTTAGACAGCGACTCAGACGAAAGGCCCACACGGTCCAGACGCCTCAGCGACAGAGCCCGACGCTACCTCCGCGCTGAGTGCTTCCGAGTGGAGAAGAACCTGCTCATCTTTGGCTGGGGCCGGTGGAAGGACATCCTGACTCACGGGCGATTCAAGTGGCCCCTGAATGAGAAGGATATGGAGATGATTTGCAGGGCTCTGCTGGTGTACTGTGTCAAGCATTACAAAGGGGATGAGAAAATCAAAAGTTTTATTTGGGAACTAATCACACCTTCCAAAGACGGGCAAGTTCAGACCCTCCAGAACCACTCAGGCTTGTCTGCCCCAGTCCCCAGAGGGAGGAAAGGAAAAAAGACAAAAAACCAGCTCTTGCTCCCAGAACTGAAGAATGCAGACTGGCTGGCCACCTGCAATCCTGAGGTGGTCTTACATGATGATGGATACAAGAAACACCTCAAACAGCATTGCAATAAGGTGCTTTTGAGAGTCCGGATGCTGTACTACCTAAAAGCTGAAATACTGGGAGAAGCAGCTGATAAAGCATTCGAGGGAACTCCTGCCAGAGAGCTGGATGTGCTTCTGCCTGACATTGACTATGTGGAGATCCCAGTGGATTGGTGGGACGCTGAAGCTGATAAGTCCCTTCTCATTGGCGTGTTCAAGCAC
Peptide sequence:
MCFCLTLTMWRSQWIGGTLKLISPFSLACSSTERPASDAWQKLETSREYRNSNRLREYQLEGMNWLLFNWYNRKNCILADEMGLGKTIQSIAFLSEIFVRGIHGPFLIIAPLSTITNWEREFRTWTEMNAIVYHGSQISRQMIQQYEMVYRDAQGNPLSGVFKFHVVITTFEMILADCPELKKIHWSCVIIDEAHRLKNRNCKLLEGLKLMALEHKVLLTGTPLQNSVEELFSLLNFLEPSQFPSETAFLEEFGDLKTEEQVKKLQSILKPMMLRRLKDDVEKNLAPKQETIIEVELTNIQKKYYRAILEKNFSFLTKGANQHNMPNLINTMMELRKCCNHPYLINGAEEKILEDFRKAHSSEASDFQLQAMIQAAGKLVLIDKLLPKLIAGGHKVLIFSQMVRCLDILEDYLIQRRYTYERIDGRVRGNLRQAAIDRFCKPDSDRFVFLLCTRAGGLGINLTAADTCIIFDSDWNPQNDLQAQARCHRIGQSKAVKVYRLITRNSYEREMFDKASLKLGLDKAILQDINRKGSTNGVQQLSKMEVEDLLRKGAYGALMDEEDEGSKFCEEDIDQILQRRTHTITIQSEGKGSTFAKASFVASGNRTDISLDDPNFWQKWAKIAELDTEANNEKESLVIDRPRVRKQTKHYNSFEEDELMEFSELDSDSDERPTRSRRLSDRARRYLRAECFRVEKNLLIFGWGRWKDILTHGRFKWPLNEKDMEMICRALLVYCVKHYKGDEKIKSFIWELITPSKDGQVQTLQNHSGLSAPVPRGRKGKKTKNQLLLPELKNADWLATCNPEVVLHDDGYKKHLKQHCNKVLLRVRMLYYLKAEILGEAADKAFEGTPARELDVLLPDIDYVEIPVDWWDAEADKSLLIGVFKH
IRESfinder result
IRESfinder score
0.499913148
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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