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mmu_circCd2ap_1104
Basic information of circular RNA
PanCircBase ID:
mmu_circCd2ap_1104
mm39_Chr. Position ID:
chr17|43131485|43163419|-
Gene name:
Cd2ap
Transcript:
ENSMUST00000024709.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
11,10,9,8,7,6,5,4,3,2
Exon/intron offsets:
0,1754,3879,5242,5686,9323,13570,18107,24731,31773
Genomic length:
31934
Exon/intron sizes in nt:
63,37,105,95,79,188,121,101,154,161
Flanking exon/introns:
chr17:43127483-43131485|chr17:43163419-43187203
Splice length:
1104
Other database IDs:
circAtlas: mmu-Cd2ap_0010
circAtlas: hsa-CD2AP_0018, CIRCpedia: HSA_CIRCpedia_135645
Human Ortholog IDs:
Mature spliced Sequence:
TTGACTATATTGTGGAATATGACTATGATGCTGTACATGATGATGAGTTAACTATCCGAGTTGGGGAAATCATCAGAAATGTGAAAAAACTACAGGAAGAAGGATGGCTAGAAGGAGAACTAAATGGGAGACGAGGGATGTTCCCTGACAATTTTGTTAAGGAAATTAAGCGAGAGACAGAACCCAAGGATGACAATTTGCCCATCAAACGGGAAAGGCAAGGAAATGTAGCAAGTCTTGTACAGCGAATCAGCACTTATGGACTTCCAGCTGGAGGAATTCAGCCACATCCACAAACCAAAGCTATTAAGAAGAAGACAAAAAAGCGTCAGTGTAAAGTTCTTTTTGACTACTCTCCACAAAATGAGGACGAACTGGAATTGATCGTGGGGGATGTCATTGACGTCATTGAAGAGGTAGAAGAAGGCTGGTGGAGTGGAACCCTGAACAATAAGTTGGGACTGTTTCCCTCAAACTTTGTGAAAGAATTAGAGTCCACAGAGGATGGTGAAACTCACAACGCTCAGGAGGAATCAGAAGTTCCTTTGACTGGCCCTACCTCACCGTTGCCATCTCCGGGGAATGGGAGTGAACCTGCTCCCGGATCAGTTGCACAGCCAAAGAAAATCCGAGGAATTGGATTTGGAGACATCTTTAAAGAAGGCTCTGTGAAACTTCGGACAAGAACTTCCAGTAGTGAAACAGAGGAGAAAAAAACAGAAAAGCCTTTAATCCTACAGCCTCTGGGATCTAGAACTCAGAATGTGGAGGTAACAAAACCAGACGTTGATGGCAAGATTAAAGCTAAGGAATATTGTAGAACATTATTTCCCTATACAGGAACCAATGAAGATGAACTTACATTTAGAGAAGGGGAGATTATCCATTTGATAAGTAAGGAGACTGGAGAAGCAGGCTGGTGGAAGGGTGAACTGAACGGTAAAGAAGGAGTGTTTCCAGATAACTTTGCTGTTCAGATAAGTGAACTAGATAAAGACTTTCCAAAACCAAAGAAACCACCTCCTCCTGCAAAAGGTCCAGCTCCAAAGCCTGACCTGTCAGCTGCAGAGAAGAAAGCTTTCCCTCTAAAGGCTGAAGAAAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGCAAAAGGTCCAGCTCCAA
60.11
TGATGATTTCCCCAACTCGGA
59.09
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAAACCACCTCCTCCTGCAA
59.89
TGATGATTTCCCCAACTCGGA
59.09
167
PCR template sequence:
AAACCAAAGAAACCACCTCCTCCTGCAAAAGGTCCAGCTCCAAAGCCTGACCTGTCAGCTGCAGAGAAGAAAGCTTTCCCTCTAAAGGCTGAAGAAAAAGTTGACTATATTGTGGAATATGACTATGATGCTGTACATGATGATGAGTTAACTATCCGAGTTGGGGAAATCATCAGAAATGTGAAAAAACTACAGGAAGA
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-9-5p(3), mmu-miR-23b-3p(1), mmu-miR-221-3p(1), mmu-miR-132-3p(1), mmu-miR-23a-3p(1), mmu-miR-212-3p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
GCTGAAGAAAAAGTTGACTATATTGT
siRNA sets
AATATAGTCAACTTTTTCT, TATAGTCAACTTTTTCTTC, ATAGTCAACTTTTTCTTCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCD2AP_1104_ORF_1
1.1048
0.17463432
0.999995929
2070
ORF sequence:
ATGTTCCCTGACAATTTTGTTAAGGAAATTAAGCGAGAGACAGAACCCAAGGATGACAATTTGCCCATCAAACGGGAAAGGCAAGGAAATGTAGCAAGTCTTGTACAGCGAATCAGCACTTATGGACTTCCAGCTGGAGGAATTCAGCCACATCCACAAACCAAAGCTATTAAGAAGAAGACAAAAAAGCGTCAGTGTAAAGTTCTTTTTGACTACTCTCCACAAAATGAGGACGAACTGGAATTGATCGTGGGGGATGTCATTGACGTCATTGAAGAGGTAGAAGAAGGCTGGTGGAGTGGAACCCTGAACAATAAGTTGGGACTGTTTCCCTCAAACTTTGTGAAAGAATTAGAGTCCACAGAGGATGGTGAAACTCACAACGCTCAGGAGGAATCAGAAGTTCCTTTGACTGGCCCTACCTCACCGTTGCCATCTCCGGGGAATGGGAGTGAACCTGCTCCCGGATCAGTTGCACAGCCAAAGAAAATCCGAGGAATTGGATTTGGAGACATCTTTAAAGAAGGCTCTGTGAAACTTCGGACAAGAACTTCCAGTAGTGAAACAGAGGAGAAAAAAACAGAAAAGCCTTTAATCCTACAGCCTCTGGGATCTAGAACTCAGAATGTGGAGGTAACAAAACCAGACGTTGATGGCAAGATTAAAGCTAAGGAATATTGTAGAACATTATTTCCCTATACAGGAACCAATGAAGATGAACTTACATTTAGAGAAGGGGAGATTATCCATTTGATAAGTAAGGAGACTGGAGAAGCAGGCTGGTGGAAGGGTGAACTGAACGGTAAAGAAGGAGTGTTTCCAGATAACTTTGCTGTTCAGATAAGTGAACTAGATAAAGACTTTCCAAAACCAAAGAAACCACCTCCTCCTGCAAAAGGTCCAGCTCCAAAGCCTGACCTGTCAGCTGCAGAGAAGAAAGCTTTCCCTCTAAAGGCTGAAGAAAAAGTTGACTATATTGTGGAATATGACTATGATGCTGTACATGATGATGAGTTAACTATCCGAGTTGGGGAAATCATCAGAAATGTGAAAAAACTACAGGAAGAAGGATGGCTAGAAGGAGAACTAAATGGGAGACGAGGGATGTTCCCTGACAATTTTGTTAAGGAAATTAAGCGAGAGACAGAACCCAAGGATGACAATTTGCCCATCAAACGGGAAAGGCAAGGAAATGTAGCAAGTCTTGTACAGCGAATCAGCACTTATGGACTTCCAGCTGGAGGAATTCAGCCACATCCACAAACCAAAGCTATTAAGAAGAAGACAAAAAAGCGTCAGTGTAAAGTTCTTTTTGACTACTCTCCACAAAATGAGGACGAACTGGAATTGATCGTGGGGGATGTCATTGACGTCATTGAAGAGGTAGAAGAAGGCTGGTGGAGTGGAACCCTGAACAATAAGTTGGGACTGTTTCCCTCAAACTTTGTGAAAGAATTAGAGTCCACAGAGGATGGTGAAACTCACAACGCTCAGGAGGAATCAGAAGTTCCTTTGACTGGCCCTACCTCACCGTTGCCATCTCCGGGGAATGGGAGTGAACCTGCTCCCGGATCAGTTGCACAGCCAAAGAAAATCCGAGGAATTGGATTTGGAGACATCTTTAAAGAAGGCTCTGTGAAACTTCGGACAAGAACTTCCAGTAGTGAAACAGAGGAGAAAAAAACAGAAAAGCCTTTAATCCTACAGCCTCTGGGATCTAGAACTCAGAATGTGGAGGTAACAAAACCAGACGTTGATGGCAAGATTAAAGCTAAGGAATATTGTAGAACATTATTTCCCTATACAGGAACCAATGAAGATGAACTTACATTTAGAGAAGGGGAGATTATCCATTTGATAAGTAAGGAGACTGGAGAAGCAGGCTGGTGGAAGGGTGAACTGAACGGTAAAGAAGGAGTGTTTCCAGATAACTTTGCTGTTCAGATAAGTGAACTAGATAAAGACTTTCCAAAACCAAAGAAACCACCTCCTCCTGCAAAAGGTCCAGCTCCAAAGCCTGACCTGTCAGCTGCAGAGAAGAAAGCTTTCCCTCTAAAGGCTGAAGAAAAA
Peptide sequence:
MFPDNFVKEIKRETEPKDDNLPIKRERQGNVASLVQRISTYGLPAGGIQPHPQTKAIKKKTKKRQCKVLFDYSPQNEDELELIVGDVIDVIEEVEEGWWSGTLNNKLGLFPSNFVKELESTEDGETHNAQEESEVPLTGPTSPLPSPGNGSEPAPGSVAQPKKIRGIGFGDIFKEGSVKLRTRTSSSETEEKKTEKPLILQPLGSRTQNVEVTKPDVDGKIKAKEYCRTLFPYTGTNEDELTFREGEIIHLISKETGEAGWWKGELNGKEGVFPDNFAVQISELDKDFPKPKKPPPPAKGPAPKPDLSAAEKKAFPLKAEEKVDYIVEYDYDAVHDDELTIRVGEIIRNVKKLQEEGWLEGELNGRRGMFPDNFVKEIKRETEPKDDNLPIKRERQGNVASLVQRISTYGLPAGGIQPHPQTKAIKKKTKKRQCKVLFDYSPQNEDELELIVGDVIDVIEEVEEGWWSGTLNNKLGLFPSNFVKELESTEDGETHNAQEESEVPLTGPTSPLPSPGNGSEPAPGSVAQPKKIRGIGFGDIFKEGSVKLRTRTSSSETEEKKTEKPLILQPLGSRTQNVEVTKPDVDGKIKAKEYCRTLFPYTGTNEDELTFREGEIIHLISKETGEAGWWKGELNGKEGVFPDNFAVQISELDKDFPKPKKPPPPAKGPAPKPDLSAAEKKAFPLKAEEK
IRESfinder result
IRESfinder score
0.492920502
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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