top of page
mmu_circNvl_1712
Basic information of circular RNA
PanCircBase ID:
mmu_circNvl_1712
mm39_Chr. Position ID:
chr1|180939852|180966732|-
Gene name:
Nvl
Transcript:
ENSMUST00000027797.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
12
Exon/intron indexes:
15,14,13,12,11,10,9,8,7,6,5,4
Exon/intron offsets:
0,1795,5148,8067,11579,14650,17221,18106,18450,22504,24585,26783
Genomic length:
26880
Exon/intron sizes in nt:
105,219,250,145,118,102,135,77,133,273,58,97
Flanking exon/introns:
chr1:180936787-180939852|chr1:180966732-180966818
Splice length:
1712
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
TATTTAGCATAATTAGTAGTGAGAAAGAACTTAAGAATCTTAAAGAACTAGAAGATGGACATCTGGCAAAAAGAGCAAGACAAGATGAAGAGGATGAGTACACTGAAAGCTATTCTGATGATGATTCGAACATGGAAGATTACCCAGATCCACAGTCAGCAAATCCCATGAACAGCTCCCTGCTCTCTTTGTATCGGAGAGGAAACTCAGAGTCTGTTTCAACCACTCCGAAGTGGGGACAGAGAGAAGCCACCACTTCCACGCCATTGCTGACGTCTAAAACGGGCTCCGTGCCATTGAAGACCCCTGCCCGAGAATCTGAGGGAGGATGGTTTATTGACAAAACTCCCGGTGGAAAGAAAGAAAGTCTTCCCTTGGACCTATCAGATGACCAAAGCAACTCTAAAAAGCAGGATTCTGAGATTCAGATTTTAAAAGACTCTTCTCTTTTGGAAAGTGATAAGAAAAGGAAAGGTAGGGCAAAGGGCAAAGGAAACAAAAGAAAAACAGAGAATCTTCAAGAAGTAGATGGAGAAATAGAAGCTCTTCTGCAAAAGAAAGCCAAAGCAAGGAGTACAGAGTTGCAGATTTCCAATGTGAAGTTTGAAGATGTTGGAGGCAATGATGCAACATTAAAAGAAGTCTGCAAAATGCTCATACACATGCGCCATCCAGAGGTATACCAGCACCTTGGTGTCGTGCCCCCTCGTGGAGTTCTCCTGCATGGACCACCAGGCTGTGGGAAGACATTACTTGCACACGCAATAGCAGGGGAACTTGACTTGCCGATTCTGAAAGTGGCTGCTCCAGAGATTGTGTCCGGAGTTTCTGGAGAGTCTGAGCAGAAGCTCCGTGAGTTATTTGACCAGGCTGTGTCAAATGCACCATGTATTGTTTTCATTGATGAAATTGATGCAATTACCCCCAAAAGAGAAGTTGCTTCAAAAGATATGGAACGAAGAATTGTAGCCCAGCTTCTAACCTGCATGGATGATCTGAATAACGTGGCAGCTACAGCTCGGGTCCTAGTTATTGGAGCTACTAACAGGCCAGACTCATTGGATCCTGCTTTGAGACGTGCAGGAAGGTTTGACCGAGAAGTCTGCTTGGGTATCCCAGATGAGGCAGCCAGAGAAAGAATTCTCCAAACGTTGTGCCGAAAACTGAGGCTTCCGGAAACTTTTAATTTTTGTCACTTAGCACACCTAACACCAGGCTTTGTTGGTGCTGATCTGATGGCTCTTTGCCGAGAGGCGGCCATGTGTGCGGTCAATAGGGTCTTGATGAAACAACAGGCGCAGCAGAAGAAAAAGCCTGAGATTGAAGGTTTGCCCTCTGAAGGAGACCAGGAGGAAAGGCTGGGAGCTGAGCCCACTTCTGAAACACAGGATGAATTGCAAAGGCTGTTGGGGTTGCTAAGAGACCAAGATCCCCTCTCAGAGGAACAGATGCAAGGACTGTGCATTGAATTGAACGATTTCATTGTTGCTCTAGCAGAAGTCCAGCCTTCTGCCAAAAGGGAAGGCTTTGTAACTGTCCCTAATGTGACATGGGCTGATATTGGTGCCCTGGAAGATATTAGAGATGAGCTTATAATGGCAATATTGGCACCTGTTCGCAACCCAGACCAGTTCAGAACTCTTGGTTTGGGGACTCCAGCTGGCATCCTCCTAGCTGGTCCTCCTGGGTGTGGAAAAACTCTGCTAGCAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCAACCCAGACCAGTTCAGA
59.89
GCTCTTTTTGCCAGATGTCCA
59.11
171
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCAACCCAGACCAGTTCAGA
59.89
TGCTCTTTTTGCCAGATGTCC
59.11
172
PCR template sequence:
TGTTCGCAACCCAGACCAGTTCAGAACTCTTGGTTTGGGGACTCCAGCTGGCATCCTCCTAGCTGGTCCTCCTGGGTGTGGAAAAACTCTGCTAGCAAAGTATTTAGCATAATTAGTAGTGAGAAAGAACTTAAGAATCTTAAAGAACTAGAAGATGGACATCTGGCAAAAAGAGCAAGACAAGATGAAGAGGATGAGTA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
15
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-7b-5p(1), mmu-miR-211-5p(1), mmu-miR-29a-3p(1), mmu-miR-7a-5p(1), mmu-miR-23a-3p(1), mmu-miR-495-3p(1), mmu-miR-24-3p(1), mmu-miR-136-5p(1), mmu-miR-26b-5p(1), mmu-miR-22-3p(1), mmu-miR-1187(1), mmu-miR-369-3p(1), mmu-miR-188-3p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
TCTGCTAGCAAAGTATTTAGCATAAT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNVL_1712_ORF_1
1.0385
0.109245595
0.999806568
1593
ORF sequence:
ATGGAAGATTACCCAGATCCACAGTCAGCAAATCCCATGAACAGCTCCCTGCTCTCTTTGTATCGGAGAGGAAACTCAGAGTCTGTTTCAACCACTCCGAAGTGGGGACAGAGAGAAGCCACCACTTCCACGCCATTGCTGACGTCTAAAACGGGCTCCGTGCCATTGAAGACCCCTGCCCGAGAATCTGAGGGAGGATGGTTTATTGACAAAACTCCCGGTGGAAAGAAAGAAAGTCTTCCCTTGGACCTATCAGATGACCAAAGCAACTCTAAAAAGCAGGATTCTGAGATTCAGATTTTAAAAGACTCTTCTCTTTTGGAAAGTGATAAGAAAAGGAAAGGTAGGGCAAAGGGCAAAGGAAACAAAAGAAAAACAGAGAATCTTCAAGAAGTAGATGGAGAAATAGAAGCTCTTCTGCAAAAGAAAGCCAAAGCAAGGAGTACAGAGTTGCAGATTTCCAATGTGAAGTTTGAAGATGTTGGAGGCAATGATGCAACATTAAAAGAAGTCTGCAAAATGCTCATACACATGCGCCATCCAGAGGTATACCAGCACCTTGGTGTCGTGCCCCCTCGTGGAGTTCTCCTGCATGGACCACCAGGCTGTGGGAAGACATTACTTGCACACGCAATAGCAGGGGAACTTGACTTGCCGATTCTGAAAGTGGCTGCTCCAGAGATTGTGTCCGGAGTTTCTGGAGAGTCTGAGCAGAAGCTCCGTGAGTTATTTGACCAGGCTGTGTCAAATGCACCATGTATTGTTTTCATTGATGAAATTGATGCAATTACCCCCAAAAGAGAAGTTGCTTCAAAAGATATGGAACGAAGAATTGTAGCCCAGCTTCTAACCTGCATGGATGATCTGAATAACGTGGCAGCTACAGCTCGGGTCCTAGTTATTGGAGCTACTAACAGGCCAGACTCATTGGATCCTGCTTTGAGACGTGCAGGAAGGTTTGACCGAGAAGTCTGCTTGGGTATCCCAGATGAGGCAGCCAGAGAAAGAATTCTCCAAACGTTGTGCCGAAAACTGAGGCTTCCGGAAACTTTTAATTTTTGTCACTTAGCACACCTAACACCAGGCTTTGTTGGTGCTGATCTGATGGCTCTTTGCCGAGAGGCGGCCATGTGTGCGGTCAATAGGGTCTTGATGAAACAACAGGCGCAGCAGAAGAAAAAGCCTGAGATTGAAGGTTTGCCCTCTGAAGGAGACCAGGAGGAAAGGCTGGGAGCTGAGCCCACTTCTGAAACACAGGATGAATTGCAAAGGCTGTTGGGGTTGCTAAGAGACCAAGATCCCCTCTCAGAGGAACAGATGCAAGGACTGTGCATTGAATTGAACGATTTCATTGTTGCTCTAGCAGAAGTCCAGCCTTCTGCCAAAAGGGAAGGCTTTGTAACTGTCCCTAATGTGACATGGGCTGATATTGGTGCCCTGGAAGATATTAGAGATGAGCTTATAATGGCAATATTGGCACCTGTTCGCAACCCAGACCAGTTCAGAACTCTTGGTTTGGGGACTCCAGCTGGCATCCTCCTAGCTGGTCCTCCTGGGTGTGGAAAAACTCTGCTAGCAAAGTATTTAGCATAA
Peptide sequence:
MEDYPDPQSANPMNSSLLSLYRRGNSESVSTTPKWGQREATTSTPLLTSKTGSVPLKTPARESEGGWFIDKTPGGKKESLPLDLSDDQSNSKKQDSEIQILKDSSLLESDKKRKGRAKGKGNKRKTENLQEVDGEIEALLQKKAKARSTELQISNVKFEDVGGNDATLKEVCKMLIHMRHPEVYQHLGVVPPRGVLLHGPPGCGKTLLAHAIAGELDLPILKVAAPEIVSGVSGESEQKLRELFDQAVSNAPCIVFIDEIDAITPKREVASKDMERRIVAQLLTCMDDLNNVAATARVLVIGATNRPDSLDPALRRAGRFDREVCLGIPDEAARERILQTLCRKLRLPETFNFCHLAHLTPGFVGADLMALCREAAMCAVNRVLMKQQAQQKKKPEIEGLPSEGDQEERLGAEPTSETQDELQRLLGLLRDQDPLSEEQMQGLCIELNDFIVALAEVQPSAKREGFVTVPNVTWADIGALEDIRDELIMAILAPVRNPDQFRTLGLGTPAGILLAGPPGCGKTLLAKYLA
IRESfinder result
IRESfinder score
0.542296037
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page