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mmu_circNvl_1464
Basic information of circular RNA
PanCircBase ID:
mmu_circNvl_1464
mm39_Chr. Position ID:
chr1|180922548|180951549|-
Gene name:
Nvl
Transcript:
ENSMUST00000027797.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
12
Exon/intron indexes:
22,21,20,19,18,17,16,15,14,13,12,11
Exon/intron offsets:
0,2152,4143,6545,10088,11876,14176,17304,19099,22452,25371,28883
Genomic length:
29001
Exon/intron sizes in nt:
7,18,97,71,07,10,01,20,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr1:180921474-180922548|chr1:180951549-180954502
Splice length:
1464
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
TCAAATGCACCATGTATTGTTTTCATTGATGAAATTGATGCAATTACCCCCAAAAGAGAAGTTGCTTCAAAAGATATGGAACGAAGAATTGTAGCCCAGCTTCTAACCTGCATGGATGATCTGAATAACGTGGCAGCTACAGCTCGGGTCCTAGTTATTGGAGCTACTAACAGGCCAGACTCATTGGATCCTGCTTTGAGACGTGCAGGAAGGTTTGACCGAGAAGTCTGCTTGGGTATCCCAGATGAGGCAGCCAGAGAAAGAATTCTCCAAACGTTGTGCCGAAAACTGAGGCTTCCGGAAACTTTTAATTTTTGTCACTTAGCACACCTAACACCAGGCTTTGTTGGTGCTGATCTGATGGCTCTTTGCCGAGAGGCGGCCATGTGTGCGGTCAATAGGGTCTTGATGAAACAACAGGCGCAGCAGAAGAAAAAGCCTGAGATTGAAGGTTTGCCCTCTGAAGGAGACCAGGAGGAAAGGCTGGGAGCTGAGCCCACTTCTGAAACACAGGATGAATTGCAAAGGCTGTTGGGGTTGCTAAGAGACCAAGATCCCCTCTCAGAGGAACAGATGCAAGGACTGTGCATTGAATTGAACGATTTCATTGTTGCTCTAGCAGAAGTCCAGCCTTCTGCCAAAAGGGAAGGCTTTGTAACTGTCCCTAATGTGACATGGGCTGATATTGGTGCCCTGGAAGATATTAGAGATGAGCTTATAATGGCAATATTGGCACCTGTTCGCAACCCAGACCAGTTCAGAACTCTTGGTTTGGGGACTCCAGCTGGCATCCTCCTAGCTGGTCCTCCTGGGTGTGGAAAAACTCTGCTAGCAAAGGCTGTGGCAAATGAGTCTGGACTAAATTTTATATCTGTCAAAGGCCCTGAATTATTGAATATGTATGTTGGTGAGAGTGAACGTGCTGTTCGACAAGTTTTTCAGCGAGCCAAGAACTCAGCCCCCTGCGTGATATTTTTTGATGAAGTGGATGCTTTATGTCCTCGGAGATCAGACCGAGAAACAGGTGCTAGTGTTCGTGTGGTGAATCAGCTGCTTACAGAGATGGATGGCTTAGAAACACGCCAGCAAGTTTTTATTTTGGCTGCCACCAATAGACCAGATATCATTGACCCTGCCATTCTGCGCCCAGGCCGCCTGGACAAAACGCTCTTTGTGGGTTTGCCTCCCCCAGCAGACCGTGTTGCCATATTAAAGACTATTACAAAAAATGGCACCAAACCTCCACTGGATGAAGATGTAAATTTGGAAACAATTGCTAATGACCTTCGTTGTAATTGCTATACGGGTGCGGACCTCACTGCTCTGGTACGGGAAGCTTCTCTCTGTGCCCTGAGACAAGAAATAACAGCTCAGAAGAATGGTGTTGGAGCAGGTGAGCTTAAGGTCAGTCATAAGCACTTTGAAGACGCTTTCAAGAAAGTAAAACCATCCATATCAATAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATGGTGTTGGAGCAGGTGAG
59.96
AGCAACTTCTCTTTTGGGGGT
59.78
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AATGGTGTTGGAGCAGGTGA
59.52
AGCAACTTCTCTTTTGGGGGT
59.78
153
PCR template sequence:
AACAGCTCAGAAGAATGGTGTTGGAGCAGGTGAGCTTAAGGTCAGTCATAAGCACTTTGAAGACGCTTTCAAGAAAGTAAAACCATCCATATCAATAAAGTCAAATGCACCATGTATTGTTTTCATTGATGAAATTGATGCAATTACCCCCAAAAGAGAAGTTGCTTCAAAAGATATGGAACGAAGAATTGTAGCCCAGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-20b-5p(1), mmu-miR-20a-5p(1), mmu-miR-17-5p(1), mmu-miR-29a-3p(1), mmu-miR-495-3p(1), mmu-miR-24-3p(1), mmu-miR-22-3p(1), mmu-miR-369-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CATATCAATAAAGTCAAATGCACCAT
siRNA sets
ATTTGACTTTATTGATATG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNVL_1464_ORF_1
1.0278
0.114247511
0.999999978
2853
ORF sequence:
ATGGAACGAAGAATTGTAGCCCAGCTTCTAACCTGCATGGATGATCTGAATAACGTGGCAGCTACAGCTCGGGTCCTAGTTATTGGAGCTACTAACAGGCCAGACTCATTGGATCCTGCTTTGAGACGTGCAGGAAGGTTTGACCGAGAAGTCTGCTTGGGTATCCCAGATGAGGCAGCCAGAGAAAGAATTCTCCAAACGTTGTGCCGAAAACTGAGGCTTCCGGAAACTTTTAATTTTTGTCACTTAGCACACCTAACACCAGGCTTTGTTGGTGCTGATCTGATGGCTCTTTGCCGAGAGGCGGCCATGTGTGCGGTCAATAGGGTCTTGATGAAACAACAGGCGCAGCAGAAGAAAAAGCCTGAGATTGAAGGTTTGCCCTCTGAAGGAGACCAGGAGGAAAGGCTGGGAGCTGAGCCCACTTCTGAAACACAGGATGAATTGCAAAGGCTGTTGGGGTTGCTAAGAGACCAAGATCCCCTCTCAGAGGAACAGATGCAAGGACTGTGCATTGAATTGAACGATTTCATTGTTGCTCTAGCAGAAGTCCAGCCTTCTGCCAAAAGGGAAGGCTTTGTAACTGTCCCTAATGTGACATGGGCTGATATTGGTGCCCTGGAAGATATTAGAGATGAGCTTATAATGGCAATATTGGCACCTGTTCGCAACCCAGACCAGTTCAGAACTCTTGGTTTGGGGACTCCAGCTGGCATCCTCCTAGCTGGTCCTCCTGGGTGTGGAAAAACTCTGCTAGCAAAGGCTGTGGCAAATGAGTCTGGACTAAATTTTATATCTGTCAAAGGCCCTGAATTATTGAATATGTATGTTGGTGAGAGTGAACGTGCTGTTCGACAAGTTTTTCAGCGAGCCAAGAACTCAGCCCCCTGCGTGATATTTTTTGATGAAGTGGATGCTTTATGTCCTCGGAGATCAGACCGAGAAACAGGTGCTAGTGTTCGTGTGGTGAATCAGCTGCTTACAGAGATGGATGGCTTAGAAACACGCCAGCAAGTTTTTATTTTGGCTGCCACCAATAGACCAGATATCATTGACCCTGCCATTCTGCGCCCAGGCCGCCTGGACAAAACGCTCTTTGTGGGTTTGCCTCCCCCAGCAGACCGTGTTGCCATATTAAAGACTATTACAAAAAATGGCACCAAACCTCCACTGGATGAAGATGTAAATTTGGAAACAATTGCTAATGACCTTCGTTGTAATTGCTATACGGGTGCGGACCTCACTGCTCTGGTACGGGAAGCTTCTCTCTGTGCCCTGAGACAAGAAATAACAGCTCAGAAGAATGGTGTTGGAGCAGGTGAGCTTAAGGTCAGTCATAAGCACTTTGAAGACGCTTTCAAGAAAGTAAAACCATCCATATCAATAAAGTCAAATGCACCATGTATTGTTTTCATTGATGAAATTGATGCAATTACCCCCAAAAGAGAAGTTGCTTCAAAAGATATGGAACGAAGAATTGTAGCCCAGCTTCTAACCTGCATGGATGATCTGAATAACGTGGCAGCTACAGCTCGGGTCCTAGTTATTGGAGCTACTAACAGGCCAGACTCATTGGATCCTGCTTTGAGACGTGCAGGAAGGTTTGACCGAGAAGTCTGCTTGGGTATCCCAGATGAGGCAGCCAGAGAAAGAATTCTCCAAACGTTGTGCCGAAAACTGAGGCTTCCGGAAACTTTTAATTTTTGTCACTTAGCACACCTAACACCAGGCTTTGTTGGTGCTGATCTGATGGCTCTTTGCCGAGAGGCGGCCATGTGTGCGGTCAATAGGGTCTTGATGAAACAACAGGCGCAGCAGAAGAAAAAGCCTGAGATTGAAGGTTTGCCCTCTGAAGGAGACCAGGAGGAAAGGCTGGGAGCTGAGCCCACTTCTGAAACACAGGATGAATTGCAAAGGCTGTTGGGGTTGCTAAGAGACCAAGATCCCCTCTCAGAGGAACAGATGCAAGGACTGTGCATTGAATTGAACGATTTCATTGTTGCTCTAGCAGAAGTCCAGCCTTCTGCCAAAAGGGAAGGCTTTGTAACTGTCCCTAATGTGACATGGGCTGATATTGGTGCCCTGGAAGATATTAGAGATGAGCTTATAATGGCAATATTGGCACCTGTTCGCAACCCAGACCAGTTCAGAACTCTTGGTTTGGGGACTCCAGCTGGCATCCTCCTAGCTGGTCCTCCTGGGTGTGGAAAAACTCTGCTAGCAAAGGCTGTGGCAAATGAGTCTGGACTAAATTTTATATCTGTCAAAGGCCCTGAATTATTGAATATGTATGTTGGTGAGAGTGAACGTGCTGTTCGACAAGTTTTTCAGCGAGCCAAGAACTCAGCCCCCTGCGTGATATTTTTTGATGAAGTGGATGCTTTATGTCCTCGGAGATCAGACCGAGAAACAGGTGCTAGTGTTCGTGTGGTGAATCAGCTGCTTACAGAGATGGATGGCTTAGAAACACGCCAGCAAGTTTTTATTTTGGCTGCCACCAATAGACCAGATATCATTGACCCTGCCATTCTGCGCCCAGGCCGCCTGGACAAAACGCTCTTTGTGGGTTTGCCTCCCCCAGCAGACCGTGTTGCCATATTAAAGACTATTACAAAAAATGGCACCAAACCTCCACTGGATGAAGATGTAAATTTGGAAACAATTGCTAATGACCTTCGTTGTAATTGCTATACGGGTGCGGACCTCACTGCTCTGGTACGGGAAGCTTCTCTCTGTGCCCTGAGACAAGAAATAACAGCTCAGAAGAATGGTGTTGGAGCAGGTGAGCTTAAGGTCAGTCATAAGCACTTTGAAGACGCTTTCAAGAAAGTAAAACCATCCATATCAATAAAG
Peptide sequence:
MERRIVAQLLTCMDDLNNVAATARVLVIGATNRPDSLDPALRRAGRFDREVCLGIPDEAARERILQTLCRKLRLPETFNFCHLAHLTPGFVGADLMALCREAAMCAVNRVLMKQQAQQKKKPEIEGLPSEGDQEERLGAEPTSETQDELQRLLGLLRDQDPLSEEQMQGLCIELNDFIVALAEVQPSAKREGFVTVPNVTWADIGALEDIRDELIMAILAPVRNPDQFRTLGLGTPAGILLAGPPGCGKTLLAKAVANESGLNFISVKGPELLNMYVGESERAVRQVFQRAKNSAPCVIFFDEVDALCPRRSDRETGASVRVVNQLLTEMDGLETRQQVFILAATNRPDIIDPAILRPGRLDKTLFVGLPPPADRVAILKTITKNGTKPPLDEDVNLETIANDLRCNCYTGADLTALVREASLCALRQEITAQKNGVGAGELKVSHKHFEDAFKKVKPSISIKSNAPCIVFIDEIDAITPKREVASKDMERRIVAQLLTCMDDLNNVAATARVLVIGATNRPDSLDPALRRAGRFDREVCLGIPDEAARERILQTLCRKLRLPETFNFCHLAHLTPGFVGADLMALCREAAMCAVNRVLMKQQAQQKKKPEIEGLPSEGDQEERLGAEPTSETQDELQRLLGLLRDQDPLSEEQMQGLCIELNDFIVALAEVQPSAKREGFVTVPNVTWADIGALEDIRDELIMAILAPVRNPDQFRTLGLGTPAGILLAGPPGCGKTLLAKAVANESGLNFISVKGPELLNMYVGESERAVRQVFQRAKNSAPCVIFFDEVDALCPRRSDRETGASVRVVNQLLTEMDGLETRQQVFILAATNRPDIIDPAILRPGRLDKTLFVGLPPPADRVAILKTITKNGTKPPLDEDVNLETIANDLRCNCYTGADLTALVREASLCALRQEITAQKNGVGAGELKVSHKHFEDAFKKVKPSISIK
IRESfinder result
IRESfinder score
0.518689458
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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