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mmu_circNvl_1041
Basic information of circular RNA
PanCircBase ID:
mmu_circNvl_1041
mm39_Chr. Position ID:
chr1|180926691|180945250|-
Gene name:
Nvl
Transcript:
ENSMUST00000027797.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
20,19,18,17,16,15,14,13
Exon/intron offsets:
0,2402,5945,7733,10033,13161,14956,18309
Genomic length:
18559
Exon/intron sizes in nt:
7,71,07,10,01,20,63,10,00,00,000
Flanking exon/introns:
chr1:180924789-180926691|chr1:180945250-180947919
Splice length:
1041
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
AATTCTCCAAACGTTGTGCCGAAAACTGAGGCTTCCGGAAACTTTTAATTTTTGTCACTTAGCACACCTAACACCAGGCTTTGTTGGTGCTGATCTGATGGCTCTTTGCCGAGAGGCGGCCATGTGTGCGGTCAATAGGGTCTTGATGAAACAACAGGCGCAGCAGAAGAAAAAGCCTGAGATTGAAGGTTTGCCCTCTGAAGGAGACCAGGAGGAAAGGCTGGGAGCTGAGCCCACTTCTGAAACACAGGATGAATTGCAAAGGCTGTTGGGGTTGCTAAGAGACCAAGATCCCCTCTCAGAGGAACAGATGCAAGGACTGTGCATTGAATTGAACGATTTCATTGTTGCTCTAGCAGAAGTCCAGCCTTCTGCCAAAAGGGAAGGCTTTGTAACTGTCCCTAATGTGACATGGGCTGATATTGGTGCCCTGGAAGATATTAGAGATGAGCTTATAATGGCAATATTGGCACCTGTTCGCAACCCAGACCAGTTCAGAACTCTTGGTTTGGGGACTCCAGCTGGCATCCTCCTAGCTGGTCCTCCTGGGTGTGGAAAAACTCTGCTAGCAAAGGCTGTGGCAAATGAGTCTGGACTAAATTTTATATCTGTCAAAGGCCCTGAATTATTGAATATGTATGTTGGTGAGAGTGAACGTGCTGTTCGACAAGTTTTTCAGCGAGCCAAGAACTCAGCCCCCTGCGTGATATTTTTTGATGAAGTGGATGCTTTATGTCCTCGGAGATCAGACCGAGAAACAGGTGCTAGTGTTCGTGTGGTGAATCAGCTGCTTACAGAGATGGATGGCTTAGAAACACGCCAGCAAGTTTTTATTTTGGCTGCCACCAATAGACCAGATATCATTGACCCTGCCATTCTGCGCCCAGGCCGCCTGGACAAAACGCTCTTTGTGGGTTTGCCTCCCCCAGCAGACCGTGTTGCCATATTAAAGACTATTACAAAAAATGGCACCAAACCTCCACTGGATGAAGATGTAAATTTGGAAACAATTGCTAATGACCTTCGTTGTAATTGCTATAC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AATGGCACCAAACCTCCACT
59.81
GCCTGGTGTTAGGTGTGCTA
59.68
156
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCACCAAACCTCCACTGGAT
60.25
GCCTGGTGTTAGGTGTGCTA
59.68
152
PCR template sequence:
CCATATTAAAGACTATTACAAAAAATGGCACCAAACCTCCACTGGATGAAGATGTAAATTTGGAAACAATTGCTAATGACCTTCGTTGTAATTGCTATACAATTCTCCAAACGTTGTGCCGAAAACTGAGGCTTCCGGAAACTTTTAATTTTTGTCACTTAGCACACCTAACACCAGGCTTTGTTGGTGCTGATCTGATG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-29a-3p(1), mmu-miR-24-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GTAATTGCTATACAATTCTCCAAACG
siRNA sets
GTTTGGAGAATTGTATAGC, TTTGGAGAATTGTATAGCA, TTGGAGAATTGTATAGCAA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNVL_1041_ORF_1
1.0303
0.123233516
0.999989223
1983
ORF sequence:
ATGGCTCTTTGCCGAGAGGCGGCCATGTGTGCGGTCAATAGGGTCTTGATGAAACAACAGGCGCAGCAGAAGAAAAAGCCTGAGATTGAAGGTTTGCCCTCTGAAGGAGACCAGGAGGAAAGGCTGGGAGCTGAGCCCACTTCTGAAACACAGGATGAATTGCAAAGGCTGTTGGGGTTGCTAAGAGACCAAGATCCCCTCTCAGAGGAACAGATGCAAGGACTGTGCATTGAATTGAACGATTTCATTGTTGCTCTAGCAGAAGTCCAGCCTTCTGCCAAAAGGGAAGGCTTTGTAACTGTCCCTAATGTGACATGGGCTGATATTGGTGCCCTGGAAGATATTAGAGATGAGCTTATAATGGCAATATTGGCACCTGTTCGCAACCCAGACCAGTTCAGAACTCTTGGTTTGGGGACTCCAGCTGGCATCCTCCTAGCTGGTCCTCCTGGGTGTGGAAAAACTCTGCTAGCAAAGGCTGTGGCAAATGAGTCTGGACTAAATTTTATATCTGTCAAAGGCCCTGAATTATTGAATATGTATGTTGGTGAGAGTGAACGTGCTGTTCGACAAGTTTTTCAGCGAGCCAAGAACTCAGCCCCCTGCGTGATATTTTTTGATGAAGTGGATGCTTTATGTCCTCGGAGATCAGACCGAGAAACAGGTGCTAGTGTTCGTGTGGTGAATCAGCTGCTTACAGAGATGGATGGCTTAGAAACACGCCAGCAAGTTTTTATTTTGGCTGCCACCAATAGACCAGATATCATTGACCCTGCCATTCTGCGCCCAGGCCGCCTGGACAAAACGCTCTTTGTGGGTTTGCCTCCCCCAGCAGACCGTGTTGCCATATTAAAGACTATTACAAAAAATGGCACCAAACCTCCACTGGATGAAGATGTAAATTTGGAAACAATTGCTAATGACCTTCGTTGTAATTGCTATACAATTCTCCAAACGTTGTGCCGAAAACTGAGGCTTCCGGAAACTTTTAATTTTTGTCACTTAGCACACCTAACACCAGGCTTTGTTGGTGCTGATCTGATGGCTCTTTGCCGAGAGGCGGCCATGTGTGCGGTCAATAGGGTCTTGATGAAACAACAGGCGCAGCAGAAGAAAAAGCCTGAGATTGAAGGTTTGCCCTCTGAAGGAGACCAGGAGGAAAGGCTGGGAGCTGAGCCCACTTCTGAAACACAGGATGAATTGCAAAGGCTGTTGGGGTTGCTAAGAGACCAAGATCCCCTCTCAGAGGAACAGATGCAAGGACTGTGCATTGAATTGAACGATTTCATTGTTGCTCTAGCAGAAGTCCAGCCTTCTGCCAAAAGGGAAGGCTTTGTAACTGTCCCTAATGTGACATGGGCTGATATTGGTGCCCTGGAAGATATTAGAGATGAGCTTATAATGGCAATATTGGCACCTGTTCGCAACCCAGACCAGTTCAGAACTCTTGGTTTGGGGACTCCAGCTGGCATCCTCCTAGCTGGTCCTCCTGGGTGTGGAAAAACTCTGCTAGCAAAGGCTGTGGCAAATGAGTCTGGACTAAATTTTATATCTGTCAAAGGCCCTGAATTATTGAATATGTATGTTGGTGAGAGTGAACGTGCTGTTCGACAAGTTTTTCAGCGAGCCAAGAACTCAGCCCCCTGCGTGATATTTTTTGATGAAGTGGATGCTTTATGTCCTCGGAGATCAGACCGAGAAACAGGTGCTAGTGTTCGTGTGGTGAATCAGCTGCTTACAGAGATGGATGGCTTAGAAACACGCCAGCAAGTTTTTATTTTGGCTGCCACCAATAGACCAGATATCATTGACCCTGCCATTCTGCGCCCAGGCCGCCTGGACAAAACGCTCTTTGTGGGTTTGCCTCCCCCAGCAGACCGTGTTGCCATATTAAAGACTATTACAAAAAATGGCACCAAACCTCCACTGGATGAAGATGTAAATTTGGAAACAATTGCTAATGACCTTCGTTGTAATTGCTAT
Peptide sequence:
MALCREAAMCAVNRVLMKQQAQQKKKPEIEGLPSEGDQEERLGAEPTSETQDELQRLLGLLRDQDPLSEEQMQGLCIELNDFIVALAEVQPSAKREGFVTVPNVTWADIGALEDIRDELIMAILAPVRNPDQFRTLGLGTPAGILLAGPPGCGKTLLAKAVANESGLNFISVKGPELLNMYVGESERAVRQVFQRAKNSAPCVIFFDEVDALCPRRSDRETGASVRVVNQLLTEMDGLETRQQVFILAATNRPDIIDPAILRPGRLDKTLFVGLPPPADRVAILKTITKNGTKPPLDEDVNLETIANDLRCNCYTILQTLCRKLRLPETFNFCHLAHLTPGFVGADLMALCREAAMCAVNRVLMKQQAQQKKKPEIEGLPSEGDQEERLGAEPTSETQDELQRLLGLLRDQDPLSEEQMQGLCIELNDFIVALAEVQPSAKREGFVTVPNVTWADIGALEDIRDELIMAILAPVRNPDQFRTLGLGTPAGILLAGPPGCGKTLLAKAVANESGLNFISVKGPELLNMYVGESERAVRQVFQRAKNSAPCVIFFDEVDALCPRRSDRETGASVRVVNQLLTEMDGLETRQQVFILAATNRPDIIDPAILRPGRLDKTLFVGLPPPADRVAILKTITKNGTKPPLDEDVNLETIANDLRCNCY
IRESfinder result
IRESfinder score
0.464336841
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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