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mmu_circCobll1_3373
Basic information of circular RNA
PanCircBase ID:
mmu_circCobll1_3373
mm39_Chr. Position ID:
chr2|64926031|64966890|-
Gene name:
Cobll1
Transcript:
ENSMUST00000112429.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
11
Exon/intron indexes:
13,12,11,10,9,8,7,6,5,4,3
Exon/intron offsets:
0,1945,6381,7472,10027,11324,12070,30205,30520,37891,40657
Genomic length:
40859
Exon/intron sizes in nt:
17,71,76,09,82,35,11,40,00,00,00,00,00,00,000
Flanking exon/introns:
chr2:64919901-64926031|chr2:64966890-64981322
Splice length:
3373
Other database IDs:
circAtlas: mmu-Cobll1_0010
Human Ortholog IDs:
Mature spliced Sequence:
TAAGCCAATGATGGACTTGCTCGTGTTCCTCTGTGCTCAGTATCACTTAAATCCGTCAAGTCACACAATTGATTTGCTCTCTGCTGAAGAGAACCTTATCAAATTTAAGCCAAACACACCAATAGGAATGCTGGATGTAGAGAAGGTAATTTTAAAGCCAAAATCTCTGGATAAGAAAAAGCCTACACCTATAATCCCAGAGAAAACTGTGAGAGTAGTGATCAACTTTAAGAAAACACAGAAGACCATAGTGAGAGTTAGTCCCCACGCACCCCTTCAAGATCTTGCTCCCATCATATGCAGTAAATGTGAGTTTGATCCGTTGCATACCGTGCTGTTGAAGGATTACCAGGCTCAGGAGCCCCTCGACTTGACAAAATCTCTTAATGACTTGGGACTAAGAGAGTTATATGCCATGGATATCAGCAGAGAGTCCTGCCAAATATCACACAACCCGGACATTGTGAAGGAGAAAGAAAACAAAGGGATTTTCAGTTTTTTCCAACGCAGCAAGAAAAAGCGAGAGCAAACTGCCAGTGCTCCTGCGACCCCACTAGTGAGCAAGCATCGTCCATCTTTCACGAGGTCCAACACCATTTCCAAACCGTACATTTCCAATACCCTGCCCTCGGATGCACCCAAGAAGAGACGTGCCCCACTGCCACCGATGCCCACATCCCAGGGTGCTGCTCAAGGCCAGGAGAGACGAGCGTCTTGTGTGGAGAGATCCACCAGTGTGGACGACACAGATAAGAGTTCCTCTGAAGCGATCATGGTGAGGACAGGATCACTGCAGCTCAGCAGCACGTCGATAGGAACTTCATCTCTGAAGAGAACGAAGCGAAAAGCACCTGCCCCACCTTCGAAAACCCCCCTGGCTCAGACTGATGAAAGGAACTCTGCAATGGCTCATGGCCTACCTTTGGAAGATGGGATTGCTCCAGACAGCATGTTGGAACTGAGCTCTCCCGAGGGAATGTCCACCCCAGAGGGCTCCCTTGGTCCCGGGTTCCTAAGCCAGGAGCAGTGTGCTGTGCCCAAGCCGCCGGATGAAATCTCTGAGGGCCCTGGAACTCCAGAGGCAGCTGTAGCATCCTTGACCTCTGGTGTAAGCTCTGATTACAGTCTTGAGGAGATAGATGAAAAGGAAGAACTCAGCGAGGCATCTAAAGATCCGGCTGGAAGTATTTCTGTGAAGTCGCCTGACATTGCTTCAGCATCGACTGATATGAGAATTACAGTGGAGAAGGATCCTGATTCAGCCCTCGGCATCAGTGATGGAGAGACCTCTCCAAGCTCCAAGGGAAAAACTCAAGAAGGCAGAAGCACAGAGGGGCAAGGGCCGTATCATCCTGTTGTAGGCCATATAGGCAATGAGGACAGAGTATCTGACAGTATAAAAGACATGAAGACACTGGGCCCAAACCAGGAGAGTGTAGTTCAAAATGAAATCATGGTCTGTGCCACAAGCACAGATTATGTGAAAAACAGACCGGGGAAAATGGAAACCACCATAGAAGGCGAAGGCGAAGCTCTGAAGAAAGCCAGCGACATGGAAACTGATAGATTGTCAGGCTCTCCTGCATGTAGAATGGACAATGTTAAAAGTTCGAGGGAAAATCATCTAACAGCATCGCCAGGACCAGATCAAAAATTGAATCAACCAGGTGTAGAGAAGACGAAAATGCAGGATGCAGCAATTCAGGCCACCCCTGCCCGCGGCACTTTTGATGGGAATCACGAAGTCAGTAATTCATCTGACCCCAGGGCTGATGAGACTGTGCAGACTTCGGATGGCAGCATATCAGCTCAGCACTCCTCTGCAAGTCTCCAGGATTCTGTAAATGCCTCAAGAGAATTCAGGAGTCAGGGCACCTCAACTTATGTACAAGATAGACTCCCTGAGAAAGAGCCAGCTTGTACATATGGGAACAATGTCCCTTTGTCACCTGTAGATGGAAGTAATAAGAATCCAGCTGCTTCTTACCTAAAGAACTTTCCACTTTATAGGCAAGACTCCAACCCCAAGCCAAAACCGTCAAATGAAATCACGAGAGAGTATATACCTAAAATTGGAATGACTACTTATAAAATAGTACCTCCGAAATCCCTGGAAATGGCGAAAGACTGGGAATCAGAAGCAATGGGGAGGAAAGATGACCAAAAGATGCTCCCTGTAGGGCAGAGGCATACGATTGAGAATATGACAGAAACTTCCATGCAAACAGAAGTCCCTGCTACTTCTAAAAGCTCACAGCAGCCTCAGCCTGACCTTAAACCAAAGCCCAGCTCAGGAACAGAGCGTCATTTGCACAGGACTTTGAGCTCACCAACTGGTACCGAGACGAACCCTCCCAAAGCACCCAGAGTGACTACAGACACTGGCACCATTCCTTTTGCGCCAAATTTGGAAGATATAAACAATATTTTGGAGTCAAAATTTAGATCCCGAGCTTCAAATCCCCAGGCCAAACCAAGTTCATTCTTTTTGCAGATGCAAAAGAGAGCATCAGGCCACTATGTGACATCTGCAGCTGCTAAGAGCGTCCACACTGCCCCTGGGCCTGCCCCTAAAGAGCCAACAATCAAGGAGGTGCAGAGGGACCCACAGCTTTCTCCAGAACAGCATCCTTCTTCCTTAAGTGAAAGGACTCACTCTGCTCCGCTGCCCAATATTTCAAAAGCTGATGATGATATAATTCAGAAGCCTGCCGAGACCTCTCCTCCTCCTGTAGCTCCCAAACCAATGACTCTTCGTGCCGAGACCTCTCCTCCTCCTGTATTTCCCAAACCAATGACTCTTCCTGCTGAGACCTCTCCTCCTCCTGTATTTCCCAAACCAATGACTCTTCCTGCCGAGACCTCTCTTCCTCTTGTATTTCCCAAACCAATGACTCTTCGAGCCGAGACCTCTCCTCCTCCTGTAGCTGCCAAGCCTGTGGCTCTCCCTGGTAGTCAGGGAACATCACTAAACCTGAAGACCTTGAAAACATTTGGGGCCCCAAGACCATACTCCAGTTCTGGCCCCTCACCCTTTGCCCTTGCTGTGGTGAAAAGGTCACAGTCGTTCAGTAAGGCATGCCCAGAGTCAGCCAGTGAGGGCTCCTCTGCCCTGCCTCCAGCTGCCACACAGGATGAAAAGACACATACAGTAAACAAGCCTACGGTGGGCTCCCAACATGGTGATGGTGATAAGCAAAATAATCCTGTACAGAATGAGCACAGTTCTCAAGTGCTGACTCCAGCTGATGGCCCATCGTTCACCCTTAAGAGACAGAGTTCTCTAACATTCCAGAGCTCTGACCCAGAGCACGTACGACAGAGCTTGCTCACTGCAATCCGGTCTGGAGAGGCTGCTGCCAAGTTGAAGAGA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTCCAGAGCTCTGACCCAGA
59.88
TCAATTGTGTGACTTGACGGA
57.81
156
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCAGAGCACGTACGACAGAG
60.18
TCAATTGTGTGACTTGACGGA
57.81
141
PCR template sequence:
ACAGAGTTCTCTAACATTCCAGAGCTCTGACCCAGAGCACGTACGACAGAGCTTGCTCACTGCAATCCGGTCTGGAGAGGCTGCTGCCAAGTTGAAGAGATAAGCCAATGATGGACTTGCTCGTGTTCCTCTGTGCTCAGTATCACTTAAATCCGTCAAGTCACACAATTGATTTGCTCTCTGCTGAAGAGAACCTTATC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
28
Interacting miRNAs (#binding sites)
mmu-miR-298-5p(2), mmu-miR-146b-5p(2), mmu-miR-20b-5p(1), mmu-miR-15a-5p(1), mmu-miR-106a-5p(1), mmu-miR-93-5p(1), mmu-miR-17-5p(1), mmu-miR-1a-3p(1), mmu-miR-206-3p(1), mmu-miR-34c-5p(1), mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-106b-5p(1), mmu-miR-146a-5p(1), mmu-miR-709(1), mmu-miR-326-3p(1), mmu-miR-143-3p(1), mmu-miR-381-3p(1), mmu-miR-214-3p(1), mmu-miR-127-5p(1), mmu-miR-218-5p(1), mmu-miR-541-5p(1), mmu-miR-297a-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-335-3p(1), mmu-miR-532-5p(1), mmu-miR-452-3p(1), mmu-miR-540-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CAAGTTGAAGAGATAAGCCAATGATG
siRNA sets
ATCATTGGCTTATCTCTTC, ATTGGCTTATCTCTTCAAC, TTGGCTTATCTCTTCAACT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCOBLL1_3373_ORF_1
1.0924
0.143295797
1
3369
ORF sequence:
ATGATGGACTTGCTCGTGTTCCTCTGTGCTCAGTATCACTTAAATCCGTCAAGTCACACAATTGATTTGCTCTCTGCTGAAGAGAACCTTATCAAATTTAAGCCAAACACACCAATAGGAATGCTGGATGTAGAGAAGGTAATTTTAAAGCCAAAATCTCTGGATAAGAAAAAGCCTACACCTATAATCCCAGAGAAAACTGTGAGAGTAGTGATCAACTTTAAGAAAACACAGAAGACCATAGTGAGAGTTAGTCCCCACGCACCCCTTCAAGATCTTGCTCCCATCATATGCAGTAAATGTGAGTTTGATCCGTTGCATACCGTGCTGTTGAAGGATTACCAGGCTCAGGAGCCCCTCGACTTGACAAAATCTCTTAATGACTTGGGACTAAGAGAGTTATATGCCATGGATATCAGCAGAGAGTCCTGCCAAATATCACACAACCCGGACATTGTGAAGGAGAAAGAAAACAAAGGGATTTTCAGTTTTTTCCAACGCAGCAAGAAAAAGCGAGAGCAAACTGCCAGTGCTCCTGCGACCCCACTAGTGAGCAAGCATCGTCCATCTTTCACGAGGTCCAACACCATTTCCAAACCGTACATTTCCAATACCCTGCCCTCGGATGCACCCAAGAAGAGACGTGCCCCACTGCCACCGATGCCCACATCCCAGGGTGCTGCTCAAGGCCAGGAGAGACGAGCGTCTTGTGTGGAGAGATCCACCAGTGTGGACGACACAGATAAGAGTTCCTCTGAAGCGATCATGGTGAGGACAGGATCACTGCAGCTCAGCAGCACGTCGATAGGAACTTCATCTCTGAAGAGAACGAAGCGAAAAGCACCTGCCCCACCTTCGAAAACCCCCCTGGCTCAGACTGATGAAAGGAACTCTGCAATGGCTCATGGCCTACCTTTGGAAGATGGGATTGCTCCAGACAGCATGTTGGAACTGAGCTCTCCCGAGGGAATGTCCACCCCAGAGGGCTCCCTTGGTCCCGGGTTCCTAAGCCAGGAGCAGTGTGCTGTGCCCAAGCCGCCGGATGAAATCTCTGAGGGCCCTGGAACTCCAGAGGCAGCTGTAGCATCCTTGACCTCTGGTGTAAGCTCTGATTACAGTCTTGAGGAGATAGATGAAAAGGAAGAACTCAGCGAGGCATCTAAAGATCCGGCTGGAAGTATTTCTGTGAAGTCGCCTGACATTGCTTCAGCATCGACTGATATGAGAATTACAGTGGAGAAGGATCCTGATTCAGCCCTCGGCATCAGTGATGGAGAGACCTCTCCAAGCTCCAAGGGAAAAACTCAAGAAGGCAGAAGCACAGAGGGGCAAGGGCCGTATCATCCTGTTGTAGGCCATATAGGCAATGAGGACAGAGTATCTGACAGTATAAAAGACATGAAGACACTGGGCCCAAACCAGGAGAGTGTAGTTCAAAATGAAATCATGGTCTGTGCCACAAGCACAGATTATGTGAAAAACAGACCGGGGAAAATGGAAACCACCATAGAAGGCGAAGGCGAAGCTCTGAAGAAAGCCAGCGACATGGAAACTGATAGATTGTCAGGCTCTCCTGCATGTAGAATGGACAATGTTAAAAGTTCGAGGGAAAATCATCTAACAGCATCGCCAGGACCAGATCAAAAATTGAATCAACCAGGTGTAGAGAAGACGAAAATGCAGGATGCAGCAATTCAGGCCACCCCTGCCCGCGGCACTTTTGATGGGAATCACGAAGTCAGTAATTCATCTGACCCCAGGGCTGATGAGACTGTGCAGACTTCGGATGGCAGCATATCAGCTCAGCACTCCTCTGCAAGTCTCCAGGATTCTGTAAATGCCTCAAGAGAATTCAGGAGTCAGGGCACCTCAACTTATGTACAAGATAGACTCCCTGAGAAAGAGCCAGCTTGTACATATGGGAACAATGTCCCTTTGTCACCTGTAGATGGAAGTAATAAGAATCCAGCTGCTTCTTACCTAAAGAACTTTCCACTTTATAGGCAAGACTCCAACCCCAAGCCAAAACCGTCAAATGAAATCACGAGAGAGTATATACCTAAAATTGGAATGACTACTTATAAAATAGTACCTCCGAAATCCCTGGAAATGGCGAAAGACTGGGAATCAGAAGCAATGGGGAGGAAAGATGACCAAAAGATGCTCCCTGTAGGGCAGAGGCATACGATTGAGAATATGACAGAAACTTCCATGCAAACAGAAGTCCCTGCTACTTCTAAAAGCTCACAGCAGCCTCAGCCTGACCTTAAACCAAAGCCCAGCTCAGGAACAGAGCGTCATTTGCACAGGACTTTGAGCTCACCAACTGGTACCGAGACGAACCCTCCCAAAGCACCCAGAGTGACTACAGACACTGGCACCATTCCTTTTGCGCCAAATTTGGAAGATATAAACAATATTTTGGAGTCAAAATTTAGATCCCGAGCTTCAAATCCCCAGGCCAAACCAAGTTCATTCTTTTTGCAGATGCAAAAGAGAGCATCAGGCCACTATGTGACATCTGCAGCTGCTAAGAGCGTCCACACTGCCCCTGGGCCTGCCCCTAAAGAGCCAACAATCAAGGAGGTGCAGAGGGACCCACAGCTTTCTCCAGAACAGCATCCTTCTTCCTTAAGTGAAAGGACTCACTCTGCTCCGCTGCCCAATATTTCAAAAGCTGATGATGATATAATTCAGAAGCCTGCCGAGACCTCTCCTCCTCCTGTAGCTCCCAAACCAATGACTCTTCGTGCCGAGACCTCTCCTCCTCCTGTATTTCCCAAACCAATGACTCTTCCTGCTGAGACCTCTCCTCCTCCTGTATTTCCCAAACCAATGACTCTTCCTGCCGAGACCTCTCTTCCTCTTGTATTTCCCAAACCAATGACTCTTCGAGCCGAGACCTCTCCTCCTCCTGTAGCTGCCAAGCCTGTGGCTCTCCCTGGTAGTCAGGGAACATCACTAAACCTGAAGACCTTGAAAACATTTGGGGCCCCAAGACCATACTCCAGTTCTGGCCCCTCACCCTTTGCCCTTGCTGTGGTGAAAAGGTCACAGTCGTTCAGTAAGGCATGCCCAGAGTCAGCCAGTGAGGGCTCCTCTGCCCTGCCTCCAGCTGCCACACAGGATGAAAAGACACATACAGTAAACAAGCCTACGGTGGGCTCCCAACATGGTGATGGTGATAAGCAAAATAATCCTGTACAGAATGAGCACAGTTCTCAAGTGCTGACTCCAGCTGATGGCCCATCGTTCACCCTTAAGAGACAGAGTTCTCTAACATTCCAGAGCTCTGACCCAGAGCACGTACGACAGAGCTTGCTCACTGCAATCCGGTCTGGAGAGGCTGCTGCCAAGTTGAAGAGATAA
Peptide sequence:
MMDLLVFLCAQYHLNPSSHTIDLLSAEENLIKFKPNTPIGMLDVEKVILKPKSLDKKKPTPIIPEKTVRVVINFKKTQKTIVRVSPHAPLQDLAPIICSKCEFDPLHTVLLKDYQAQEPLDLTKSLNDLGLRELYAMDISRESCQISHNPDIVKEKENKGIFSFFQRSKKKREQTASAPATPLVSKHRPSFTRSNTISKPYISNTLPSDAPKKRRAPLPPMPTSQGAAQGQERRASCVERSTSVDDTDKSSSEAIMVRTGSLQLSSTSIGTSSLKRTKRKAPAPPSKTPLAQTDERNSAMAHGLPLEDGIAPDSMLELSSPEGMSTPEGSLGPGFLSQEQCAVPKPPDEISEGPGTPEAAVASLTSGVSSDYSLEEIDEKEELSEASKDPAGSISVKSPDIASASTDMRITVEKDPDSALGISDGETSPSSKGKTQEGRSTEGQGPYHPVVGHIGNEDRVSDSIKDMKTLGPNQESVVQNEIMVCATSTDYVKNRPGKMETTIEGEGEALKKASDMETDRLSGSPACRMDNVKSSRENHLTASPGPDQKLNQPGVEKTKMQDAAIQATPARGTFDGNHEVSNSSDPRADETVQTSDGSISAQHSSASLQDSVNASREFRSQGTSTYVQDRLPEKEPACTYGNNVPLSPVDGSNKNPAASYLKNFPLYRQDSNPKPKPSNEITREYIPKIGMTTYKIVPPKSLEMAKDWESEAMGRKDDQKMLPVGQRHTIENMTETSMQTEVPATSKSSQQPQPDLKPKPSSGTERHLHRTLSSPTGTETNPPKAPRVTTDTGTIPFAPNLEDINNILESKFRSRASNPQAKPSSFFLQMQKRASGHYVTSAAAKSVHTAPGPAPKEPTIKEVQRDPQLSPEQHPSSLSERTHSAPLPNISKADDDIIQKPAETSPPPVAPKPMTLRAETSPPPVFPKPMTLPAETSPPPVFPKPMTLPAETSLPLVFPKPMTLRAETSPPPVAAKPVALPGSQGTSLNLKTLKTFGAPRPYSSSGPSPFALAVVKRSQSFSKACPESASEGSSALPPAATQDEKTHTVNKPTVGSQHGDGDKQNNPVQNEHSSQVLTPADGPSFTLKRQSSLTFQSSDPEHVRQSLLTAIRSGEAAAKLKR
IRESfinder result
IRESfinder score
0.518271163
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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