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mmu_circKif5c_721
Basic information of circular RNA
PanCircBase ID:
mmu_circKif5c_721
mm39_Chr. Position ID:
chr2|49583705|49600880|+
Gene name:
Kif5c
Transcript:
ENSMUST00000028102.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
5,6,7,8,9,10,11
Exon/intron offsets:
0,306,1074,4286,6807,7263,17026
Genomic length:
17175
Exon/intron sizes in nt:
49,56,88,125,105,149,149
Flanking exon/introns:
chr2:49578769-49583705|chr2:49600880-49612988
Splice length:
721
Other database IDs:
CIRCpedia: MMU_CIRCpedia_222083, circAtlas: mmu-Kif5c_0006
circAtlas: hsa-KIF5C_0008
Human Ortholog IDs:
Mature spliced Sequence:
GTTTCCTATTTTGAGATCTACTTGGACAAAATAAGGGACTTGCTTGATGTGTCCAAGACCAACTTGGCAGTTCATGAAGACAAAAACAGAGTCCCCTATGTAAAGGGGTGCACCGAGAGGTTTGTGTCAAGCCCGGAGGAGGTCATGGATGTGATCGATGAGGGCAAAGCAAACCGACACGTGGCTGTGACAAACATGAACGAACACAGCTCTAGGAGTCACAGTATCTTCCTGATTAACATTAAGCAAGAGAATGTGGAGACTGAAAAAAAACTCAGCGGGAAGCTGTATTTGGTTGATTTGGCTGGGAGTGAAAAGGTCAGCAAAACCGGTGCCGAGGGAGCTGTTCTTGATGAAGCTAAAAATATCAACAAGTCTTTGTCTGCTCTTGGAAATGTGATTTCTGCCTTGGCAGAAGGGACAAAAACACATGTACCGTACCGGGACAGCAAGATGACTCGGATTCTCCAGGACTCTCTGGGTGGGAACTGTAGGACCACCATTGTCATTTGCTGTTCTCCTTCAGTCTTCAATGAAGCCGAGACCAAGTCCACGCTGATGTTTGGACAGAGAGCAAAGACCATCAAGAATACAGTCTCTGTGAACTTGGAACTAACAGCAGAAGAGTGGAAGAAGAAATATGAAAAAGAGAAAGAGAAGAACAAGGCCTTGAAGAGTGTCCTCCAGCATCTGGAGATGGAGCTGAACAGGTGGAGGAACG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGCCTTGAAGAGTGTCCTCC
60.04
AGGGGACTCTGTTTTTGTCTTCA
59.8
153
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGCCTTGAAGAGTGTCCTCC
60.04
GGGGACTCTGTTTTTGTCTTCA
58.45
152
PCR template sequence:
GAAGAGTGGAAGAAGAAATATGAAAAAGAGAAAGAGAAGAACAAGGCCTTGAAGAGTGTCCTCCAGCATCTGGAGATGGAGCTGAACAGGTGGAGGAACGGTTTCCTATTTTGAGATCTACTTGGACAAAATAAGGGACTTGCTTGATGTGTCCAAGACCAACTTGGCAGTTCATGAAGACAAAAACAGAGTCCCCTATG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-23b-3p(1), mmu-miR-26a-5p(1), mmu-miR-335-5p(1), mmu-miR-23a-3p(1), mmu-miR-26b-5p(1), mmu-miR-673-5p(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGGTGGAGGAACGGTTTCCTATTTTG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCKIF5C_721_ORF_1
1.2444
0.25499826
0.912517451
591
ORF sequence:
ATGGATGTGATCGATGAGGGCAAAGCAAACCGACACGTGGCTGTGACAAACATGAACGAACACAGCTCTAGGAGTCACAGTATCTTCCTGATTAACATTAAGCAAGAGAATGTGGAGACTGAAAAAAAACTCAGCGGGAAGCTGTATTTGGTTGATTTGGCTGGGAGTGAAAAGGTCAGCAAAACCGGTGCCGAGGGAGCTGTTCTTGATGAAGCTAAAAATATCAACAAGTCTTTGTCTGCTCTTGGAAATGTGATTTCTGCCTTGGCAGAAGGGACAAAAACACATGTACCGTACCGGGACAGCAAGATGACTCGGATTCTCCAGGACTCTCTGGGTGGGAACTGTAGGACCACCATTGTCATTTGCTGTTCTCCTTCAGTCTTCAATGAAGCCGAGACCAAGTCCACGCTGATGTTTGGACAGAGAGCAAAGACCATCAAGAATACAGTCTCTGTGAACTTGGAACTAACAGCAGAAGAGTGGAAGAAGAAATATGAAAAAGAGAAAGAGAAGAACAAGGCCTTGAAGAGTGTCCTCCAGCATCTGGAGATGGAGCTGAACAGGTGGAGGAACGGTTTCCTATTTTGA
Peptide sequence:
MDVIDEGKANRHVAVTNMNEHSSRSHSIFLINIKQENVETEKKLSGKLYLVDLAGSEKVSKTGAEGAVLDEAKNINKSLSALGNVISALAEGTKTHVPYRDSKMTRILQDSLGGNCRTTIVICCSPSVFNEAETKSTLMFGQRAKTIKNTVSVNLELTAEEWKKKYEKEKEKNKALKSVLQHLEMELNRWRNGFLF
IRESfinder result
IRESfinder score
0.58337823
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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