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mmu_circCkap5_1152
Basic information of circular RNA
PanCircBase ID:
mmu_circCkap5_1152
mm39_Chr. Position ID:
chr2|91425027|91431471|+
Gene name:
Ckap5
Transcript:
ENSMUST00000111338.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
29,30,31,32,33,34,35
Exon/intron offsets:
0,628,1005,1679,4523,5958,6323
Genomic length:
6444
Exon/intron sizes in nt:
15,02,04,13,61,94,17,30,00,000
Flanking exon/introns:
chr2:91422136-91425027|chr2:91431471-91436590
Splice length:
1152
Other database IDs:
circAtlas: mmu-Ckap5_0004
circBase: hsa_circ_0095885, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_4488
Human Ortholog IDs:
Mature spliced Sequence:
GTGCTAAAGTGGAATTTTACTACCCCACGGGATGAGTACATTGAACAGCTGAAGACTCAGATGTCTACCTGTGTGGCTAAATGGTTACAGGATGAAATGTTTCACTCAGATTTCCAGCATCACAATAAAGCCCTAGCTGTCATGGTTGATCACTTGGAAAGTGAAAAAGACGGTGTCATCAGTTGCTTAGATCTTATCTTAAAATGGCTTACCCTCCGGTTTTTCGACACCAATACAAGCGTTCTAATGAAAGCACTGGAATATTTAAAATTGCTTTTCACCCTGCTGAGTGAGGAAGAGTATCATCTTACTGAGAATGAAGCATCGTCCTTTATCCCCTATCTCATCCTCAAGGTTGGAGAACCAAAGGATGTCATTCGTAAAGATGTCCGTGCTATCCTGAACCGGATGTGCCTTGTCTACCCAGCCAGCAAAATGTTCCCCTTCATTATGGAAGGAACCAAGTCCAAAAACTCTAAGCAGAGAGCAGAGTGCCTGGAAGAGCTAGGTTGCTTAATTGAGTCCTATGGTATGAATGTTTGTCAGCCAACCCCAGGAAAAGCCTTAAAGGAGATAGCTATTCACATAGGAGACCGAGACAATGCTGTACGGAATGCTGCCCTCAACACCATTGTAACAGTGTACAACGTGCATGGAGATCAGGTGTTCAAACTGATTGGAAATCTTTCTGAGAAAGACATGAGCATGCTTGAGGAGAGGATAAAGCGGTCAGCAAAGAGACCCTCTGCTGCACCTGTGAAACAGGCCGAAGAGAAACCTCAGCGCACACAGAATATAAACTCTAATGCCAACATGCTACGCAAGGGACCAGCTGAGGATATGTCCTCCAAACTTAATCAAGCTCGAAGCCTGAGTGGGCATCCTGAAGCAGCCCAGATGGTTCGCCGAGAATTCCAGCTGGATTTAGATGAGATTGAAAATGATAATGGTACAGTCCGCTGTGAAATGCCAGAGCTTGTCCAGCACAAACTTGATGACATTTTTGAACCTGTCCTTATTCCTGAACCTAAGATCCGGGCTGTTTCTCCACATTTTGATGACATGCACAGTAATACAGCATCCACAATCAATTTCATTATCTCCCAAGTAGCCAGTGGTGACATCAACACAAGCATCCAAGCTCTGACACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTCCCAAGTAGCCAGTGGTG
60.04
TCCTGTAACCATTTAGCCACACA
59.93
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTCCCAAGTAGCCAGTGGTG
60.04
TGTAACCATTTAGCCACACAGGT
60.18
141
PCR template sequence:
TTTTGATGACATGCACAGTAATACAGCATCCACAATCAATTTCATTATCTCCCAAGTAGCCAGTGGTGACATCAACACAAGCATCCAAGCTCTGACACAGGTGCTAAAGTGGAATTTTACTACCCCACGGGATGAGTACATTGAACAGCTGAAGACTCAGATGTCTACCTGTGTGGCTAAATGGTTACAGGATGAAATGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-103-3p(1), mmu-miR-216a-5p(1), mmu-miR-181b-5p(1), mmu-miR-494-3p(1), mmu-miR-107-3p(1), mmu-miR-669d-5p(1), mmu-miR-3105-3p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGCTCTGACACAGGTGCTAAAGTGGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCKAP5_1152_ORF_1
1.1018
0.237579376
0.999999096
2244
ORF sequence:
ATGTCTACCTGTGTGGCTAAATGGTTACAGGATGAAATGTTTCACTCAGATTTCCAGCATCACAATAAAGCCCTAGCTGTCATGGTTGATCACTTGGAAAGTGAAAAAGACGGTGTCATCAGTTGCTTAGATCTTATCTTAAAATGGCTTACCCTCCGGTTTTTCGACACCAATACAAGCGTTCTAATGAAAGCACTGGAATATTTAAAATTGCTTTTCACCCTGCTGAGTGAGGAAGAGTATCATCTTACTGAGAATGAAGCATCGTCCTTTATCCCCTATCTCATCCTCAAGGTTGGAGAACCAAAGGATGTCATTCGTAAAGATGTCCGTGCTATCCTGAACCGGATGTGCCTTGTCTACCCAGCCAGCAAAATGTTCCCCTTCATTATGGAAGGAACCAAGTCCAAAAACTCTAAGCAGAGAGCAGAGTGCCTGGAAGAGCTAGGTTGCTTAATTGAGTCCTATGGTATGAATGTTTGTCAGCCAACCCCAGGAAAAGCCTTAAAGGAGATAGCTATTCACATAGGAGACCGAGACAATGCTGTACGGAATGCTGCCCTCAACACCATTGTAACAGTGTACAACGTGCATGGAGATCAGGTGTTCAAACTGATTGGAAATCTTTCTGAGAAAGACATGAGCATGCTTGAGGAGAGGATAAAGCGGTCAGCAAAGAGACCCTCTGCTGCACCTGTGAAACAGGCCGAAGAGAAACCTCAGCGCACACAGAATATAAACTCTAATGCCAACATGCTACGCAAGGGACCAGCTGAGGATATGTCCTCCAAACTTAATCAAGCTCGAAGCCTGAGTGGGCATCCTGAAGCAGCCCAGATGGTTCGCCGAGAATTCCAGCTGGATTTAGATGAGATTGAAAATGATAATGGTACAGTCCGCTGTGAAATGCCAGAGCTTGTCCAGCACAAACTTGATGACATTTTTGAACCTGTCCTTATTCCTGAACCTAAGATCCGGGCTGTTTCTCCACATTTTGATGACATGCACAGTAATACAGCATCCACAATCAATTTCATTATCTCCCAAGTAGCCAGTGGTGACATCAACACAAGCATCCAAGCTCTGACACAGGTGCTAAAGTGGAATTTTACTACCCCACGGGATGAGTACATTGAACAGCTGAAGACTCAGATGTCTACCTGTGTGGCTAAATGGTTACAGGATGAAATGTTTCACTCAGATTTCCAGCATCACAATAAAGCCCTAGCTGTCATGGTTGATCACTTGGAAAGTGAAAAAGACGGTGTCATCAGTTGCTTAGATCTTATCTTAAAATGGCTTACCCTCCGGTTTTTCGACACCAATACAAGCGTTCTAATGAAAGCACTGGAATATTTAAAATTGCTTTTCACCCTGCTGAGTGAGGAAGAGTATCATCTTACTGAGAATGAAGCATCGTCCTTTATCCCCTATCTCATCCTCAAGGTTGGAGAACCAAAGGATGTCATTCGTAAAGATGTCCGTGCTATCCTGAACCGGATGTGCCTTGTCTACCCAGCCAGCAAAATGTTCCCCTTCATTATGGAAGGAACCAAGTCCAAAAACTCTAAGCAGAGAGCAGAGTGCCTGGAAGAGCTAGGTTGCTTAATTGAGTCCTATGGTATGAATGTTTGTCAGCCAACCCCAGGAAAAGCCTTAAAGGAGATAGCTATTCACATAGGAGACCGAGACAATGCTGTACGGAATGCTGCCCTCAACACCATTGTAACAGTGTACAACGTGCATGGAGATCAGGTGTTCAAACTGATTGGAAATCTTTCTGAGAAAGACATGAGCATGCTTGAGGAGAGGATAAAGCGGTCAGCAAAGAGACCCTCTGCTGCACCTGTGAAACAGGCCGAAGAGAAACCTCAGCGCACACAGAATATAAACTCTAATGCCAACATGCTACGCAAGGGACCAGCTGAGGATATGTCCTCCAAACTTAATCAAGCTCGAAGCCTGAGTGGGCATCCTGAAGCAGCCCAGATGGTTCGCCGAGAATTCCAGCTGGATTTAGATGAGATTGAAAATGATAATGGTACAGTCCGCTGTGAAATGCCAGAGCTTGTCCAGCACAAACTTGATGACATTTTTGAACCTGTCCTTATTCCTGAACCTAAGATCCGGGCTGTTTCTCCACATTTTGATGACATGCACAGTAATACAGCATCCACAATCAATTTCATTATCTCCCAAGTAGCCAGTGGTGACATCAACACAAGCATCCAAGCTCTGACACAG
Peptide sequence:
MSTCVAKWLQDEMFHSDFQHHNKALAVMVDHLESEKDGVISCLDLILKWLTLRFFDTNTSVLMKALEYLKLLFTLLSEEEYHLTENEASSFIPYLILKVGEPKDVIRKDVRAILNRMCLVYPASKMFPFIMEGTKSKNSKQRAECLEELGCLIESYGMNVCQPTPGKALKEIAIHIGDRDNAVRNAALNTIVTVYNVHGDQVFKLIGNLSEKDMSMLEERIKRSAKRPSAAPVKQAEEKPQRTQNINSNANMLRKGPAEDMSSKLNQARSLSGHPEAAQMVRREFQLDLDEIENDNGTVRCEMPELVQHKLDDIFEPVLIPEPKIRAVSPHFDDMHSNTASTINFIISQVASGDINTSIQALTQVLKWNFTTPRDEYIEQLKTQMSTCVAKWLQDEMFHSDFQHHNKALAVMVDHLESEKDGVISCLDLILKWLTLRFFDTNTSVLMKALEYLKLLFTLLSEEEYHLTENEASSFIPYLILKVGEPKDVIRKDVRAILNRMCLVYPASKMFPFIMEGTKSKNSKQRAECLEELGCLIESYGMNVCQPTPGKALKEIAIHIGDRDNAVRNAALNTIVTVYNVHGDQVFKLIGNLSEKDMSMLEERIKRSAKRPSAAPVKQAEEKPQRTQNINSNANMLRKGPAEDMSSKLNQARSLSGHPEAAQMVRREFQLDLDEIENDNGTVRCEMPELVQHKLDDIFEPVLIPEPKIRAVSPHFDDMHSNTASTINFIISQVASGDINTSIQALTQ
IRESfinder result
IRESfinder score
0.516940555
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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