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mmu_circLancl1_924
Basic information of circular RNA
PanCircBase ID:
mmu_circLancl1_924
mm39_Chr. Position ID:
chr1|67043497|67060224|-
Gene name:
Lancl1
Transcript:
ENSMUST00000027149.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
9,8,7,6,5,4
Exon/intron offsets:
0,451,2529,4889,5572,16519
Genomic length:
16727
Exon/intron sizes in nt:
73,17,71,83,14,71,36,200
Flanking exon/introns:
chr1:67042716-67043497|chr1:67060224-67073282
Splice length:
924
Other database IDs:
circAtlas: mmu-Lancl1_0010
Human Ortholog IDs:
Mature spliced Sequence:
GCATCGCTGTGCTTTACCTCCACCTCCACAATGTGTTTGGGGACCCAGCCTATCTACAGATGGCGCACAGCTATGTAAAGCAAAGCCTCAACTGTCTGAGCAGGCGTTCCATCACCTTCCTGTGTGGCGATGCGGGCCCCCTGGCTGTGGCTGCTGTGCTGTACCACAAGATGAACAGTGAGAAGCAGGCCGAGGAGTGCATCACACGGCTCATTCACCTAAATAAGATTGATCCCCACGTACCAAATGAAATGCTCTATGGCCGCATAGGCTACATCTTTGCTCTGCTTTTTGTCAATAAGAACTTTGGAGAGGAGAAGATTCCTCAGAGCCATATTCAGCAGATTTGTGAAAACATCTTAACCTCTGGGGAAAACCTATCTAGAAAGAGAAACTTGGCGGCAAAGTCTCCACTGATGTATGAGTGGTACCAGGAATATTACGTGGGGGCTGCTCATGGCTTGGCAGGCATTTATTACTACCTGATGCAGCCCAGCCTTCAGGTGAACCAAGGAAAGTTGCATAGTTTGGTGAAGCCCAGTGTAGACTTTGTCTGCCGGCTGAAGTTTCCTTCCGGCAATTACCCTCCATGTTTGGATGATACCAGAGACCTGCTTGTCCATTGGTGCCACGGTGCTCCTGGGGTCATCTATATGCTCATCCAAGCATACAAGGTGTTCAAAGAAGAGCGTTACCTGTGTGATGCCCAGCAGTGTGCTGACGTGATCTGGCAGTACGGGCTACTGAAGAAGGGCTACGGGCTGTGCCATGGTGCTGCAGGGAATGCCTACGCTTTCCTGGCACTCTACAACCTCACACAGGATCTGAAGTATCTGTACAGGGCCTGCAAGTTTGCTGAGTGGTGCTTAGACTACGGGGAGCACGGATGCAGGACAGCGGACACCCCCTTCTCCCTCTTTGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGTGCTTAGACTACGGGGA
59.96
GCTTTACATAGCTGTGCGCC
59.97
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCTTAGACTACGGGGAGCAC
59.9
GCTTTACATAGCTGTGCGCC
59.97
141
PCR template sequence:
CTGAAGTATCTGTACAGGGCCTGCAAGTTTGCTGAGTGGTGCTTAGACTACGGGGAGCACGGATGCAGGACAGCGGACACCCCCTTCTCCCTCTTTGAAGGCATCGCTGTGCTTTACCTCCACCTCCACAATGTGTTTGGGGACCCAGCCTATCTACAGATGGCGCACAGCTATGTAAAGCAAAGCCTCAACTGTCTGAG
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-29b-3p(1), mmu-miR-29a-3p(1), mmu-miR-29c-3p(1), mmu-miR-217-5p(1), mmu-miR-214-3p(1), mmu-miR-127-3p(1), mmu-miR-297a-5p(1), mmu-miR-377-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TCCCTCTTTGAAGGCATCGCTGTGCT
siRNA sets
CAGCGATGCCTTCAAAGAG, ACAGCGATGCCTTCAAAGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCLANCL1_924_ORF_1
0.9444
0.29802681
0.999974865
1788
ORF sequence:
ATGGCGCACAGCTATGTAAAGCAAAGCCTCAACTGTCTGAGCAGGCGTTCCATCACCTTCCTGTGTGGCGATGCGGGCCCCCTGGCTGTGGCTGCTGTGCTGTACCACAAGATGAACAGTGAGAAGCAGGCCGAGGAGTGCATCACACGGCTCATTCACCTAAATAAGATTGATCCCCACGTACCAAATGAAATGCTCTATGGCCGCATAGGCTACATCTTTGCTCTGCTTTTTGTCAATAAGAACTTTGGAGAGGAGAAGATTCCTCAGAGCCATATTCAGCAGATTTGTGAAAACATCTTAACCTCTGGGGAAAACCTATCTAGAAAGAGAAACTTGGCGGCAAAGTCTCCACTGATGTATGAGTGGTACCAGGAATATTACGTGGGGGCTGCTCATGGCTTGGCAGGCATTTATTACTACCTGATGCAGCCCAGCCTTCAGGTGAACCAAGGAAAGTTGCATAGTTTGGTGAAGCCCAGTGTAGACTTTGTCTGCCGGCTGAAGTTTCCTTCCGGCAATTACCCTCCATGTTTGGATGATACCAGAGACCTGCTTGTCCATTGGTGCCACGGTGCTCCTGGGGTCATCTATATGCTCATCCAAGCATACAAGGTGTTCAAAGAAGAGCGTTACCTGTGTGATGCCCAGCAGTGTGCTGACGTGATCTGGCAGTACGGGCTACTGAAGAAGGGCTACGGGCTGTGCCATGGTGCTGCAGGGAATGCCTACGCTTTCCTGGCACTCTACAACCTCACACAGGATCTGAAGTATCTGTACAGGGCCTGCAAGTTTGCTGAGTGGTGCTTAGACTACGGGGAGCACGGATGCAGGACAGCGGACACCCCCTTCTCCCTCTTTGAAGGCATCGCTGTGCTTTACCTCCACCTCCACAATGTGTTTGGGGACCCAGCCTATCTACAGATGGCGCACAGCTATGTAAAGCAAAGCCTCAACTGTCTGAGCAGGCGTTCCATCACCTTCCTGTGTGGCGATGCGGGCCCCCTGGCTGTGGCTGCTGTGCTGTACCACAAGATGAACAGTGAGAAGCAGGCCGAGGAGTGCATCACACGGCTCATTCACCTAAATAAGATTGATCCCCACGTACCAAATGAAATGCTCTATGGCCGCATAGGCTACATCTTTGCTCTGCTTTTTGTCAATAAGAACTTTGGAGAGGAGAAGATTCCTCAGAGCCATATTCAGCAGATTTGTGAAAACATCTTAACCTCTGGGGAAAACCTATCTAGAAAGAGAAACTTGGCGGCAAAGTCTCCACTGATGTATGAGTGGTACCAGGAATATTACGTGGGGGCTGCTCATGGCTTGGCAGGCATTTATTACTACCTGATGCAGCCCAGCCTTCAGGTGAACCAAGGAAAGTTGCATAGTTTGGTGAAGCCCAGTGTAGACTTTGTCTGCCGGCTGAAGTTTCCTTCCGGCAATTACCCTCCATGTTTGGATGATACCAGAGACCTGCTTGTCCATTGGTGCCACGGTGCTCCTGGGGTCATCTATATGCTCATCCAAGCATACAAGGTGTTCAAAGAAGAGCGTTACCTGTGTGATGCCCAGCAGTGTGCTGACGTGATCTGGCAGTACGGGCTACTGAAGAAGGGCTACGGGCTGTGCCATGGTGCTGCAGGGAATGCCTACGCTTTCCTGGCACTCTACAACCTCACACAGGATCTGAAGTATCTGTACAGGGCCTGCAAGTTTGCTGAGTGGTGCTTAGACTACGGGGAGCACGGATGCAGGACAGCGGACACCCCCTTCTCCCTCTTTGAA
Peptide sequence:
MAHSYVKQSLNCLSRRSITFLCGDAGPLAVAAVLYHKMNSEKQAEECITRLIHLNKIDPHVPNEMLYGRIGYIFALLFVNKNFGEEKIPQSHIQQICENILTSGENLSRKRNLAAKSPLMYEWYQEYYVGAAHGLAGIYYYLMQPSLQVNQGKLHSLVKPSVDFVCRLKFPSGNYPPCLDDTRDLLVHWCHGAPGVIYMLIQAYKVFKEERYLCDAQQCADVIWQYGLLKKGYGLCHGAAGNAYAFLALYNLTQDLKYLYRACKFAEWCLDYGEHGCRTADTPFSLFEGIAVLYLHLHNVFGDPAYLQMAHSYVKQSLNCLSRRSITFLCGDAGPLAVAAVLYHKMNSEKQAEECITRLIHLNKIDPHVPNEMLYGRIGYIFALLFVNKNFGEEKIPQSHIQQICENILTSGENLSRKRNLAAKSPLMYEWYQEYYVGAAHGLAGIYYYLMQPSLQVNQGKLHSLVKPSVDFVCRLKFPSGNYPPCLDDTRDLLVHWCHGAPGVIYMLIQAYKVFKEERYLCDAQQCADVIWQYGLLKKGYGLCHGAAGNAYAFLALYNLTQDLKYLYRACKFAEWCLDYGEHGCRTADTPFSLFE
IRESfinder result
IRESfinder score
0.416140344
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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