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mmu_circAnkrd13a_1103
Basic information of circular RNA
PanCircBase ID:
mmu_circAnkrd13a_1103
mm39_Chr. Position ID:
chr5|114929324|114939877|+
Gene name:
Ankrd13a
Transcript:
ENSMUST00000102578.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
5,6,7,8,9,10,11,12,13
Exon/intron offsets:
0,836,4417,5570,6589,7257,8120,9441,10392
Genomic length:
10553
Exon/intron sizes in nt:
1,44,19,06,78,26,21,31,00,00,00,000
Flanking exon/introns:
chr5:114927414-114929324|chr5:114939877-114941617
Splice length:
1103
Other database IDs:
circBase: hsa_circ_0028163, circAtlas: hsa-ANKRD13A_0005, CIRCpedia: HSA_CIRCpedia_6593
Human Ortholog IDs:
Mature spliced Sequence:
TGCCCTTGGTGTCTAGAATATGCCCCAACGATGTCTGTCGCATATGGAAGAGTGGAGCCAAGCTGCGCGTGGACATCACCTTGCTGGGGTTTGAAAACATGAGCTGGATCAGAGGGAGGCGGAGCTTCATATTTAAGGGAGGAGACAACTGGGCGGAGCTGATGGAGGTCAACCACGATGACCGCGTGGTCACCACCGAACACTTCGATCTTTCCCAAGAAATGGAGCGCCTCACCCTGGACCTGATGAAGCCAAAAAGCAGGGAGGTGGAGAGGCGGCTGACAAGCCCAGTCATCAACACCAGCCTGGATACTAAGAACGTTGCCTTTGAGAGAACTAAATCCGGATTCTGGGGCTGGAGGACAGATAAAGCTGAAGTTGTCAATGGTTACGAAGCCAAGGTTTACTCGGTAAACAACGTGAGCGTGATAACCAGGATCCGCACCGAGCACCTAACGGAGGAGGAGAAGAAGCGATACAAAGAGGACCGGAATCCACTGGAGTCTCTGCTCGGAACCGTGGAACATCAGTTTGGTGCTCAAGGGGACCTCGCTACGGAGTGTGCCACTGTGAACAACCCCACGGCCATCACTCCCGACGAGTACTTTGACGAAGACTTTGACCTGAAAGACAGGGACATTGGAAGACCAAAAGAGCTGACAATTAGAACGCAGAAGTTTAAGGCTACGCTGTGGATGTGCGAGGAGTTCCCACTCTCCCTCGTGGAGCAGGTCATCCCCATCATTGACCTCATGGCTCGCACCAGCGCTCACTTTGCCAGATTGAGAGATTTCATCAAATTGGACTTCCCTCCTGGATTCCCTGTCAAAATAGAAATCCCCTTATTCCACGTCTTAAACGCACGGATCACATTCGGAAATGTCAATGGCTGTAGCACTGCTGATGAGAGCCAGGGTGTGGAGGGGACCCCGGCCGAGGCAGTTTCCGAGGCCACAAACTTCGAGGTTGATCAGTCTGTCTTTGAAATCCCTGAATCCTACCACATTCAAGACAATGGCAGAAACGTGCACCTGCAAGACGAAGACTATGAGATCATGCAGTTTGCCATCCAGCAGAGCCTGCTGGAGTCCAGTAGGAGCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACAATGGCAGAAACGTGCAC
59.97
GCTTGGCTCCACTCTTCCAT
60.03
155
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GACAATGGCAGAAACGTGCA
59.69
GCTTGGCTCCACTCTTCCAT
60.03
156
PCR template sequence:
CATTCAAGACAATGGCAGAAACGTGCACCTGCAAGACGAAGACTATGAGATCATGCAGTTTGCCATCCAGCAGAGCCTGCTGGAGTCCAGTAGGAGCCAGTGCCCTTGGTGTCTAGAATATGCCCCAACGATGTCTGTCGCATATGGAAGAGTGGAGCCAAGCTGCGCGTGGACATCACCTTGCTGGGGTTTGAAAACAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
12
Interacting miRNAs (#binding sites)
mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-138-5p(1), mmu-miR-339-5p(1), mmu-miR-214-3p(1), mmu-miR-149-5p(1), mmu-miR-136-5p(1), mmu-miR-431-5p(1), mmu-miR-127-5p(1), mmu-miR-199b-3p(1), mmu-miR-199a-3p(1), mmu-miR-541-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CAGTAGGAGCCAGTGCCCTTGGTGTC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCANKRD13A_1103_ORF_1
1.1221
0.362815922
0.998099834
1107
ORF sequence:
ATGAGCTGGATCAGAGGGAGGCGGAGCTTCATATTTAAGGGAGGAGACAACTGGGCGGAGCTGATGGAGGTCAACCACGATGACCGCGTGGTCACCACCGAACACTTCGATCTTTCCCAAGAAATGGAGCGCCTCACCCTGGACCTGATGAAGCCAAAAAGCAGGGAGGTGGAGAGGCGGCTGACAAGCCCAGTCATCAACACCAGCCTGGATACTAAGAACGTTGCCTTTGAGAGAACTAAATCCGGATTCTGGGGCTGGAGGACAGATAAAGCTGAAGTTGTCAATGGTTACGAAGCCAAGGTTTACTCGGTAAACAACGTGAGCGTGATAACCAGGATCCGCACCGAGCACCTAACGGAGGAGGAGAAGAAGCGATACAAAGAGGACCGGAATCCACTGGAGTCTCTGCTCGGAACCGTGGAACATCAGTTTGGTGCTCAAGGGGACCTCGCTACGGAGTGTGCCACTGTGAACAACCCCACGGCCATCACTCCCGACGAGTACTTTGACGAAGACTTTGACCTGAAAGACAGGGACATTGGAAGACCAAAAGAGCTGACAATTAGAACGCAGAAGTTTAAGGCTACGCTGTGGATGTGCGAGGAGTTCCCACTCTCCCTCGTGGAGCAGGTCATCCCCATCATTGACCTCATGGCTCGCACCAGCGCTCACTTTGCCAGATTGAGAGATTTCATCAAATTGGACTTCCCTCCTGGATTCCCTGTCAAAATAGAAATCCCCTTATTCCACGTCTTAAACGCACGGATCACATTCGGAAATGTCAATGGCTGTAGCACTGCTGATGAGAGCCAGGGTGTGGAGGGGACCCCGGCCGAGGCAGTTTCCGAGGCCACAAACTTCGAGGTTGATCAGTCTGTCTTTGAAATCCCTGAATCCTACCACATTCAAGACAATGGCAGAAACGTGCACCTGCAAGACGAAGACTATGAGATCATGCAGTTTGCCATCCAGCAGAGCCTGCTGGAGTCCAGTAGGAGCCAGTGCCCTTGGTGTCTAGAATATGCCCCAACGATGTCTGTCGCATATGGAAGAGTGGAGCCAAGCTGCGCGTGGACATCACCTTGCTGGGGTTTGAAAACATGA
Peptide sequence:
MSWIRGRRSFIFKGGDNWAELMEVNHDDRVVTTEHFDLSQEMERLTLDLMKPKSREVERRLTSPVINTSLDTKNVAFERTKSGFWGWRTDKAEVVNGYEAKVYSVNNVSVITRIRTEHLTEEEKKRYKEDRNPLESLLGTVEHQFGAQGDLATECATVNNPTAITPDEYFDEDFDLKDRDIGRPKELTIRTQKFKATLWMCEEFPLSLVEQVIPIIDLMARTSAHFARLRDFIKLDFPPGFPVKIEIPLFHVLNARITFGNVNGCSTADESQGVEGTPAEAVSEATNFEVDQSVFEIPESYHIQDNGRNVHLQDEDYEIMQFAIQQSLLESSRSQCPWCLEYAPTMSVAYGRVEPSCAWTSPCWGLKT
IRESfinder result
IRESfinder score
0.333722473
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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