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mmu_circKif1a_1241
Basic information of circular RNA
PanCircBase ID:
mmu_circKif1a_1241
mm39_Chr. Position ID:
chr1|92980145|92990668|-
Gene name:
Kif1a
Transcript:
ENSMUST00000171796.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
11
Exon/intron indexes:
25,24,23,22,21,20,19,18,17,16,15
Exon/intron offsets:
0,1836,2392,3261,3533,3676,6390,7773,8314,10076,10443
Genomic length:
10523
Exon/intron sizes in nt:
138,179,149,94,73,181,84,107,80,76,80
Flanking exon/introns:
chr1:92974492-92980145|chr1:92990668-92991870
Splice length:
1241
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GAAACAGAGAAGATCATTGCTGAACTCAATGAGACCTGGGAGGAGAAGCTGCGGCGGACAGAAGCCATCCGGATGGAGAGGGAAGCCTTGCTGGCTGAGATGGGTGTGGCCATGAGGGAAGATGGTGGTACCTTGGGTGTGTTTTCTCCCAAAAAGACTCCTCATCTTGTCAACCTGAATGAGGACCCTTTGATGTCCGAATGCCTCCTTTACTACATCAAAGATGGCGTCACCAGAGTGGGCAGAGAAGATGCAGAGAGGCGGCAAGACATTGTCCTGAGTGGACACTTCATCAAAGAGGAGCACTGCATCTTCCGGAGTGACTCCCGAGGAGGCGGAGAAGCTGTGGTGACCCTGGAGCCCTGTGAAGGAGCAGACACATATGTCAACGGCAAGAAAGTCACTGAGCCCAGCATCCTACGGTCAGGAAACCGCATCATCATGGGAAAAAGCCACGTGTTCCGGTTTAACCACCCTGAGCAGGCCCGTCAGGAGCGTGAGCGAACACCTTGTGCAGAGACACCTGCTGAGCCAGTGGACTGGGCCTTTGCCCAGCGGGAACTGCTGGAGAAGCAAGGCATTGACATGAAGCAGGAGATGGAGCAGAGGCTCCAGGAGTTGGAGGACCAGTACCGGAGGGAGCGGGAGGAGGCCACATACCTTCTGGAGCAGCAGAGGCTGGACTATGAGAGTAAGCTGGAGGCCCTACAGAAACAGATGGACTCCAGGTACTACCCAGAGGTGAACGAGGAGGAAGAAGAGCCAGAGGATGAAGTCCAATGGACAGAACGAGAATGTGAGCTGGCATTGTGGGCCTTCCGGAAGTGGAAGTGGTACCAGTTTACTTCTCTGCGGGACCTGCTGTGGGGCAATGCCATCTTCCTGAAGGAGGCCAACGCCATCAGTGTGGAGCTAAAGAAGAAGGTCCAGTTCCAGTTTGTCCTCCTCACGGACACCCTGTACTCCCCACTGCCGCCAGACCTACTGCCCCCAGAAGCCGCCAAAGACCGAGAGACACGACCCTTCCCCAGGACCATTGTGGCAGTGGAGGTCCAGGACCAGAAGAATGGGGCCACCCACTACTGGACACTGGAGAAACTCAGGCAACGCCTGGACCTGATGCGGGAAATGTACGACAGGGCTGCAGAGGTTCCCTCCAGCGTCGTTGAGGACTGTGACAACGTGGTGACCGGCGGGGACCCCTTCTATGACCGCTTCCCCTGGTTCCGACTGGTGGGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGTCGTTGAGGACTGTGACA
59.97
CAAGGCTTCCCTCTCCATCC
59.82
171
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGAGGACTGTGACAACGTGG
59.9
CAAGGCTTCCCTCTCCATCC
59.82
165
PCR template sequence:
CTGCAGAGGTTCCCTCCAGCGTCGTTGAGGACTGTGACAACGTGGTGACCGGCGGGGACCCCTTCTATGACCGCTTCCCCTGGTTCCGACTGGTGGGCAGGAAACAGAGAAGATCATTGCTGAACTCAATGAGACCTGGGAGGAGAAGCTGCGGCGGACAGAAGCCATCCGGATGGAGAGGGAAGCCTTGCTGGCTGAGA
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-207(4), mmu-miR-149-5p(2), mmu-miR-1904(2), mmu-miR-199a-5p(1), mmu-miR-216a-5p(1), mmu-miR-214-3p(1), mmu-miR-324-3p(1), mmu-miR-3470b(1)
siRNAs for circular RNA silencing
Junction sequence
GACTGGTGGGCAGGAAACAGAGAAGA
siRNA sets
TCTTCTCTGTTTCCTGCCC, TTCTCTGTTTCCTGCCCAC, TCTCTGTTTCCTGCCCACC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCKIF1A_1241_ORF_1
1.1887
0.449798371
0.99966939
1284
ORF sequence:
ATGGAGAGGGAAGCCTTGCTGGCTGAGATGGGTGTGGCCATGAGGGAAGATGGTGGTACCTTGGGTGTGTTTTCTCCCAAAAAGACTCCTCATCTTGTCAACCTGAATGAGGACCCTTTGATGTCCGAATGCCTCCTTTACTACATCAAAGATGGCGTCACCAGAGTGGGCAGAGAAGATGCAGAGAGGCGGCAAGACATTGTCCTGAGTGGACACTTCATCAAAGAGGAGCACTGCATCTTCCGGAGTGACTCCCGAGGAGGCGGAGAAGCTGTGGTGACCCTGGAGCCCTGTGAAGGAGCAGACACATATGTCAACGGCAAGAAAGTCACTGAGCCCAGCATCCTACGGTCAGGAAACCGCATCATCATGGGAAAAAGCCACGTGTTCCGGTTTAACCACCCTGAGCAGGCCCGTCAGGAGCGTGAGCGAACACCTTGTGCAGAGACACCTGCTGAGCCAGTGGACTGGGCCTTTGCCCAGCGGGAACTGCTGGAGAAGCAAGGCATTGACATGAAGCAGGAGATGGAGCAGAGGCTCCAGGAGTTGGAGGACCAGTACCGGAGGGAGCGGGAGGAGGCCACATACCTTCTGGAGCAGCAGAGGCTGGACTATGAGAGTAAGCTGGAGGCCCTACAGAAACAGATGGACTCCAGGTACTACCCAGAGGTGAACGAGGAGGAAGAAGAGCCAGAGGATGAAGTCCAATGGACAGAACGAGAATGTGAGCTGGCATTGTGGGCCTTCCGGAAGTGGAAGTGGTACCAGTTTACTTCTCTGCGGGACCTGCTGTGGGGCAATGCCATCTTCCTGAAGGAGGCCAACGCCATCAGTGTGGAGCTAAAGAAGAAGGTCCAGTTCCAGTTTGTCCTCCTCACGGACACCCTGTACTCCCCACTGCCGCCAGACCTACTGCCCCCAGAAGCCGCCAAAGACCGAGAGACACGACCCTTCCCCAGGACCATTGTGGCAGTGGAGGTCCAGGACCAGAAGAATGGGGCCACCCACTACTGGACACTGGAGAAACTCAGGCAACGCCTGGACCTGATGCGGGAAATGTACGACAGGGCTGCAGAGGTTCCCTCCAGCGTCGTTGAGGACTGTGACAACGTGGTGACCGGCGGGGACCCCTTCTATGACCGCTTCCCCTGGTTCCGACTGGTGGGCAGGAAACAGAGAAGATCATTGCTGAACTCAATGAGACCTGGGAGGAGAAGCTGCGGCGGACAGAAGCCATCCGGATGGAGAGGGAAGCCTTGCTGGCTGAGATGGGTGTGGCCATGA
Peptide sequence:
MEREALLAEMGVAMREDGGTLGVFSPKKTPHLVNLNEDPLMSECLLYYIKDGVTRVGREDAERRQDIVLSGHFIKEEHCIFRSDSRGGGEAVVTLEPCEGADTYVNGKKVTEPSILRSGNRIIMGKSHVFRFNHPEQARQERERTPCAETPAEPVDWAFAQRELLEKQGIDMKQEMEQRLQELEDQYRREREEATYLLEQQRLDYESKLEALQKQMDSRYYPEVNEEEEEPEDEVQWTERECELALWAFRKWKWYQFTSLRDLLWGNAIFLKEANAISVELKKKVQFQFVLLTDTLYSPLPPDLLPPEAAKDRETRPFPRTIVAVEVQDQKNGATHYWTLEKLRQRLDLMREMYDRAAEVPSSVVEDCDNVVTGGDPFYDRFPWFRLVGRKQRRSLLNSMRPGRRSCGGQKPSGWRGKPCWLRWVWP
IRESfinder result
IRESfinder score
0.251581689
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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