top of page
mmu_circKlc1_726
Basic information of circular RNA
PanCircBase ID:
mmu_circKlc1_726
mm39_Chr. Position ID:
chr12|111740786|111745134|+
Gene name:
Klc1
Transcript:
ENSMUST00000239017.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
3,4,5,6,7
Exon/intron offsets:
0,1571,2459,3667,4246
Genomic length:
4348
Exon/intron sizes in nt:
231,79,226,88,102
Flanking exon/introns:
chr12:111739014-111740786|chr12:111745134-111748085
Splice length:
726
Other database IDs:
CIRCpedia: MMU_CIRCpedia_3236, circAtlas: mmu-Klc1_0019
Human Ortholog IDs:
Mature spliced Sequence:
GTGATGATGGCGCTGTCCAATCACCTGAATGCTGTGGAGTCCGAGAAGCAAAAGCTCCGCGCTCAGGTTCGACGGCTGTGCCAGGAGAACCAGTGGCTGCGGGATGAGCTGGCCAACACGCAGCAGAAGTTGCAGAAGAGCGAGCAGTCGGTGGCGCAGCTGGAGGAGGAGAAGAAACACCTGGAGTTCATGAACCAGCTGAAGAAGTACGACGACGACATCTCCCCCTCGGAGGACAAAGACTCTGATTCTTCCAAAGAGCCGTTGGATGATCTCTTCCCAAATGACGAGGACGAACCAGGACAAGGAATCCAGCAGCAGCACAGTAGTGCTGCGGCCGCCGCCCAGCAGGGCGGCTACGAGATCCCTGCAAGGCTGCGCACGCTCCACAACTTGGTGATCCAGTATGCTTCACAGGGGCGTTACGAGGTGGCGGTGCCACTCTGCAAGCAGGCCCTGGAGGATCTGGAGAAGACTTCCGGCCACGACCACCCCGATGTGGCTACCATGCTCAACATCTTGGCCCTGGTGTACAGGGATCAGAACAAGTATAAAGATGCAGCTAACCTCCTGAACGACGCCCTGGCTATCCGCGAGAAAACCCTGGGCAGAGATCACCCCGCGGTGGCAGCGACTCTGAACAACCTAGCAGTACTGTACGGTAAGCGAGGGAAGTACAAGGAGGCGGAGCCGCTGTGTAAACGAGCCCTGGAGATCAGGGAGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCAGCGACTCTGAACAACCT
60.6
TCGGACTCCACAGCATTCAG
59.75
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCAGCGACTCTGAACAACCT
60.6
CTCGGACTCCACAGCATTCA
59.75
144
PCR template sequence:
GGCAGCGACTCTGAACAACCTAGCAGTACTGTACGGTAAGCGAGGGAAGTACAAGGAGGCGGAGCCGCTGTGTAAACGAGCCCTGGAGATCAGGGAGAAGGTGATGATGGCGCTGTCCAATCACCTGAATGCTGTGGAGTCCGAGAAGCAAAAGCTCCGCGCTCAGGTTCGACGGCTGTGCCAGGAGAACCAGTGGCTGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-207(2), mmu-miR-101a-3p(1), mmu-miR-101b-3p(1), mmu-miR-370-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GATCAGGGAGAAGGTGATGATGGCGC
siRNA sets
CATCATCACCTTCTCCCTG, ATCATCACCTTCTCCCTGA, GCCATCATCACCTTCTCCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCKLC1_726_ORF_1
1.2168
0.627505126
0.999954956
1449
ORF sequence:
ATGATGGCGCTGTCCAATCACCTGAATGCTGTGGAGTCCGAGAAGCAAAAGCTCCGCGCTCAGGTTCGACGGCTGTGCCAGGAGAACCAGTGGCTGCGGGATGAGCTGGCCAACACGCAGCAGAAGTTGCAGAAGAGCGAGCAGTCGGTGGCGCAGCTGGAGGAGGAGAAGAAACACCTGGAGTTCATGAACCAGCTGAAGAAGTACGACGACGACATCTCCCCCTCGGAGGACAAAGACTCTGATTCTTCCAAAGAGCCGTTGGATGATCTCTTCCCAAATGACGAGGACGAACCAGGACAAGGAATCCAGCAGCAGCACAGTAGTGCTGCGGCCGCCGCCCAGCAGGGCGGCTACGAGATCCCTGCAAGGCTGCGCACGCTCCACAACTTGGTGATCCAGTATGCTTCACAGGGGCGTTACGAGGTGGCGGTGCCACTCTGCAAGCAGGCCCTGGAGGATCTGGAGAAGACTTCCGGCCACGACCACCCCGATGTGGCTACCATGCTCAACATCTTGGCCCTGGTGTACAGGGATCAGAACAAGTATAAAGATGCAGCTAACCTCCTGAACGACGCCCTGGCTATCCGCGAGAAAACCCTGGGCAGAGATCACCCCGCGGTGGCAGCGACTCTGAACAACCTAGCAGTACTGTACGGTAAGCGAGGGAAGTACAAGGAGGCGGAGCCGCTGTGTAAACGAGCCCTGGAGATCAGGGAGAAGGTGATGATGGCGCTGTCCAATCACCTGAATGCTGTGGAGTCCGAGAAGCAAAAGCTCCGCGCTCAGGTTCGACGGCTGTGCCAGGAGAACCAGTGGCTGCGGGATGAGCTGGCCAACACGCAGCAGAAGTTGCAGAAGAGCGAGCAGTCGGTGGCGCAGCTGGAGGAGGAGAAGAAACACCTGGAGTTCATGAACCAGCTGAAGAAGTACGACGACGACATCTCCCCCTCGGAGGACAAAGACTCTGATTCTTCCAAAGAGCCGTTGGATGATCTCTTCCCAAATGACGAGGACGAACCAGGACAAGGAATCCAGCAGCAGCACAGTAGTGCTGCGGCCGCCGCCCAGCAGGGCGGCTACGAGATCCCTGCAAGGCTGCGCACGCTCCACAACTTGGTGATCCAGTATGCTTCACAGGGGCGTTACGAGGTGGCGGTGCCACTCTGCAAGCAGGCCCTGGAGGATCTGGAGAAGACTTCCGGCCACGACCACCCCGATGTGGCTACCATGCTCAACATCTTGGCCCTGGTGTACAGGGATCAGAACAAGTATAAAGATGCAGCTAACCTCCTGAACGACGCCCTGGCTATCCGCGAGAAAACCCTGGGCAGAGATCACCCCGCGGTGGCAGCGACTCTGAACAACCTAGCAGTACTGTACGGTAAGCGAGGGAAGTACAAGGAGGCGGAGCCGCTGTGTAAACGAGCCCTGGAGATCAGGGAGAAG
Peptide sequence:
MMALSNHLNAVESEKQKLRAQVRRLCQENQWLRDELANTQQKLQKSEQSVAQLEEEKKHLEFMNQLKKYDDDISPSEDKDSDSSKEPLDDLFPNDEDEPGQGIQQQHSSAAAAAQQGGYEIPARLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGRDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVMMALSNHLNAVESEKQKLRAQVRRLCQENQWLRDELANTQQKLQKSEQSVAQLEEEKKHLEFMNQLKKYDDDISPSEDKDSDSSKEPLDDLFPNDEDEPGQGIQQQHSSAAAAAQQGGYEIPARLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGRDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREK
IRESfinder result
IRESfinder score
0.165659142
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page