top of page
mmu_circLct_1633
Basic information of circular RNA
PanCircBase ID:
mmu_circLct_1633
mm39_Chr. Position ID:
chr1|128231488|128240875|-
Gene name:
Lct
Transcript:
ENSMUST00000073490.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
7,6,5,4,3
Exon/intron offsets:
0,3804,6765,7783,9303
Genomic length:
9387
Exon/intron sizes in nt:
646,721,79,103,84
Flanking exon/introns:
chr1:128229132-128231488|chr1:128240875-128246795
Splice length:
1633
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GGCTCCGTGGATTTCCTCTCTCTTGATTTGTCTTATGACTGCCAAAGTATATCGACTCTACCACAGAAGCTGAGTGAATTGCAGAACCTTGAGCCCAAAGTGAAAGTTTTCGTCTACACCCTAAAACCTCAGGACTGCCCATCGACTGGAATGAGCCCCGCCTCACTGCTCTTCAGACTCCTGGAAGCCATAAATAAAGACCAAGTCCAGACTGTTGGGTTTGATGTCAGTGCCTTCCTGAGCTGTACGTCCAGTTCTGAGGAGAGCCCATCTTGTTCTTTAACCTACAGTAGCCTGGCCCTTCAGAGCGAGCAGCAGCATGAGACAGTTGTGTCCTCATTCCCTGGGTCGGCCTACCAGAGAGTCTGGGCAGCCTTGGCTAACCAGTCTAGGGAGGAAAGGGACGCTTTCCTGCAAGATGTATTTCCAGAAGGGTTCCTCTGGGGCGTATCCACGGGAGCCTTTAACGTGGAAGGAGGCTGGGCCGAAGGTGGCAGAGGGCCAAGCATCTGGGACCACTACAGTAACCTGAATGCTGCGGAGAGCCAAGCGACAGCAAAGGTGGCCAGTGACAGTTACCACAAACCAGTTTCTGATGTGGCCCTCCTCCGAGGCCTCAGGGCTGACGTGTACAAATTCTCCATCTCCTGGTCCCGCATCTTCCCTTTCGGGCAGAGGACCAGCCCCAACCTCCAAGGTGTTGCCTACTACAACAAACTGATTGACAGCCTGCTGGACTCCCAGGTGGAGCCCATGGCTACGCTGTTCCACTGGGACCTCCCCCAGGCCCTGCAGGAGCAAGGCGGGTGGCAGAACGAGAGTGTGGTGGATGCCTTCCTGGACTACGCCGCCTTCTGCTTCTCCACCTTTGGGGACCGTGTGAAGCTGTGGGTGACCTTCCATGAGCCCTGGGTGATAAGCTATGCAGGCTACGGCACCGGGCAGCATGCGCCAGCCATCTCTGACCCAGGAGTGGCTTCCTTTAAGGTGGCTCACCTGATCCTCAAGGCGCATGCCAGAACTTGGCATCACTACAACTATCACCATCGCCAAAAGCAGCAGGGACGCGTGGGCATTGTGCTCAATTCAGACTGGGCGGAGCCCCTGGACGGGAAGAGCCCGCAGGACCTTGCTGCTGCCGAGCGCTACCTGCACTTCATGCTAGGCTGGTTTGCACACCCCATCTTCATAGATGGGGACTACCCTGCTGCCCTTCGGGCCCAGATCCAGCACACAAACCAGCAGTGTGGCCGTCCTCTGGCCCAACTCCCAGAGTTCACTGAAGCAGAGAAGCGGCTCCTGAAAGGCTCTGCGGATTTCCTAGGTCTGTCTCATTACACATCCCGCCTCATCAGCAAGGCCGGGCAGCAGACCTGCATCCCCAGCTATGATAACATCGGAGGCTTCTCCCAGCACGTAGATCCCAAGTGGCCCCAGACCGCATCGCCCTGGATCCGAGTGGTGCCCTGGGGCATAAGGAGGCTGCTTCGGTTCGCTTCCCTGGAATACACGAAAGGAAAACTTCCAATCTTCTTGGCTGGAAATGGCATGCCAATAGGGGAAGGGTCGGATCTGTTTGATGACTCAATGAGAGTAAACTACTTAAACTTGTACATCAACGAGGTGCTCAAGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TAGGGGAAGGGTCGGATCTG
60.11
TTGGGCTCAAGGTTCTGCAA
60.11
176
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TAGGGGAAGGGTCGGATCTG
60.11
TTTGGGCTCAAGGTTCTGCA
60.11
177
PCR template sequence:
TTGGCTGGAAATGGCATGCCAATAGGGGAAGGGTCGGATCTGTTTGATGACTCAATGAGAGTAAACTACTTAAACTTGTACATCAACGAGGTGCTCAAGGGGCTCCGTGGATTTCCTCTCTCTTGATTTGTCTTATGACTGCCAAAGTATATCGACTCTACCACAGAAGCTGAGTGAATTGCAGAACCTTGAGCCCAAAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
14
Interacting miRNAs (#binding sites)
mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-322-5p(1), mmu-miR-328-3p(1), mmu-miR-196a-5p(1), mmu-miR-132-3p(1), mmu-miR-181b-5p(1), mmu-miR-214-3p(1), mmu-miR-351-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-676-3p(1), mmu-miR-511-3p(1), mmu-miR-540-3p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
GAGGTGCTCAAGGGGCTCCGTGGATT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCLCT_1633_ORF_1
1.009
0.316423727
0.999839988
1509
ORF sequence:
ATGAGCCCCGCCTCACTGCTCTTCAGACTCCTGGAAGCCATAAATAAAGACCAAGTCCAGACTGTTGGGTTTGATGTCAGTGCCTTCCTGAGCTGTACGTCCAGTTCTGAGGAGAGCCCATCTTGTTCTTTAACCTACAGTAGCCTGGCCCTTCAGAGCGAGCAGCAGCATGAGACAGTTGTGTCCTCATTCCCTGGGTCGGCCTACCAGAGAGTCTGGGCAGCCTTGGCTAACCAGTCTAGGGAGGAAAGGGACGCTTTCCTGCAAGATGTATTTCCAGAAGGGTTCCTCTGGGGCGTATCCACGGGAGCCTTTAACGTGGAAGGAGGCTGGGCCGAAGGTGGCAGAGGGCCAAGCATCTGGGACCACTACAGTAACCTGAATGCTGCGGAGAGCCAAGCGACAGCAAAGGTGGCCAGTGACAGTTACCACAAACCAGTTTCTGATGTGGCCCTCCTCCGAGGCCTCAGGGCTGACGTGTACAAATTCTCCATCTCCTGGTCCCGCATCTTCCCTTTCGGGCAGAGGACCAGCCCCAACCTCCAAGGTGTTGCCTACTACAACAAACTGATTGACAGCCTGCTGGACTCCCAGGTGGAGCCCATGGCTACGCTGTTCCACTGGGACCTCCCCCAGGCCCTGCAGGAGCAAGGCGGGTGGCAGAACGAGAGTGTGGTGGATGCCTTCCTGGACTACGCCGCCTTCTGCTTCTCCACCTTTGGGGACCGTGTGAAGCTGTGGGTGACCTTCCATGAGCCCTGGGTGATAAGCTATGCAGGCTACGGCACCGGGCAGCATGCGCCAGCCATCTCTGACCCAGGAGTGGCTTCCTTTAAGGTGGCTCACCTGATCCTCAAGGCGCATGCCAGAACTTGGCATCACTACAACTATCACCATCGCCAAAAGCAGCAGGGACGCGTGGGCATTGTGCTCAATTCAGACTGGGCGGAGCCCCTGGACGGGAAGAGCCCGCAGGACCTTGCTGCTGCCGAGCGCTACCTGCACTTCATGCTAGGCTGGTTTGCACACCCCATCTTCATAGATGGGGACTACCCTGCTGCCCTTCGGGCCCAGATCCAGCACACAAACCAGCAGTGTGGCCGTCCTCTGGCCCAACTCCCAGAGTTCACTGAAGCAGAGAAGCGGCTCCTGAAAGGCTCTGCGGATTTCCTAGGTCTGTCTCATTACACATCCCGCCTCATCAGCAAGGCCGGGCAGCAGACCTGCATCCCCAGCTATGATAACATCGGAGGCTTCTCCCAGCACGTAGATCCCAAGTGGCCCCAGACCGCATCGCCCTGGATCCGAGTGGTGCCCTGGGGCATAAGGAGGCTGCTTCGGTTCGCTTCCCTGGAATACACGAAAGGAAAACTTCCAATCTTCTTGGCTGGAAATGGCATGCCAATAGGGGAAGGGTCGGATCTGTTTGATGACTCAATGAGAGTAAACTACTTAAACTTGTACATCAACGAGGTGCTCAAGGGGCTCCGTGGATTTCCTCTCTCTTGA
Peptide sequence:
MSPASLLFRLLEAINKDQVQTVGFDVSAFLSCTSSSEESPSCSLTYSSLALQSEQQHETVVSSFPGSAYQRVWAALANQSREERDAFLQDVFPEGFLWGVSTGAFNVEGGWAEGGRGPSIWDHYSNLNAAESQATAKVASDSYHKPVSDVALLRGLRADVYKFSISWSRIFPFGQRTSPNLQGVAYYNKLIDSLLDSQVEPMATLFHWDLPQALQEQGGWQNESVVDAFLDYAAFCFSTFGDRVKLWVTFHEPWVISYAGYGTGQHAPAISDPGVASFKVAHLILKAHARTWHHYNYHHRQKQQGRVGIVLNSDWAEPLDGKSPQDLAAAERYLHFMLGWFAHPIFIDGDYPAALRAQIQHTNQQCGRPLAQLPEFTEAEKRLLKGSADFLGLSHYTSRLISKAGQQTCIPSYDNIGGFSQHVDPKWPQTASPWIRVVPWGIRRLLRFASLEYTKGKLPIFLAGNGMPIGEGSDLFDDSMRVNYLNLYINEVLKGLRGFPLS
IRESfinder result
IRESfinder score
0.468499166
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page