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mmu_circKat14_504
Basic information of circular RNA
PanCircBase ID:
mmu_circKat14_504
mm39_Chr. Position ID:
chr2|144242605|144246109|+
Gene name:
Kat14
Transcript:
ENSMUST00000028911.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
8,9,10
Exon/intron offsets:
0,1709,3313
Genomic length:
3504
Exon/intron sizes in nt:
13,71,76,191
Flanking exon/introns:
chr2:144236298-144242605|chr2:144246109-144248542
Splice length:
504
Other database IDs:
circAtlas: mmu-Csrp2bp_0002
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_95515
Human Ortholog IDs:
Mature spliced Sequence:
ACTGCCTTACCAGCCAGGAAAGGATTCCGGCACCAGACCACGAGATTTTTGTATCGTTTGGTGGGATCAGAAGATCTGGCTGTGGACCAAAGTATTATCAGCCCTTATACTTCTCGGATCTTGAAACCTTATATCAGGCGTGATTATGAGACAAAGCCACCCAAACTACAGCTCCTGTCACAGATCCGTTCCCACCTGCACAGGAGTGACCCTCACTGGACACCTGGACCTGATGCACCCCTCGATTACTGCTATGTCCGACCAAATCACATCCCAACCATCAACTCCATGTGCCAGGAGTTTTTCTGGCCTGGCATTGACCTGTCTGAGTGTCTGCAGTATCCAGACTTCAGTGTTGTAGTCCTTTATAAAAAAGTCATTGTTGCCTTTGGCTTCATGGTTCCTGATGTGAAGTACAACGAAGCTTACATCTCATTTCTGCTTGTTCATCCTGAGTGGAGGAGAGCAGGGATCGCCACATTCATGATCTATCATCTGATTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCCTGAGTGGAGGAGAGCAG
60.32
TGGTCCACAGCCAGATCTTC
59.38
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAGTGGAGGAGAGCAGGGAT
60.4
TGGTCCACAGCCAGATCTTC
59.38
140
PCR template sequence:
TGATGTGAAGTACAACGAAGCTTACATCTCATTTCTGCTTGTTCATCCTGAGTGGAGGAGAGCAGGGATCGCCACATTCATGATCTATCATCTGATTCAGACTGCCTTACCAGCCAGGAAAGGATTCCGGCACCAGACCACGAGATTTTTGTATCGTTTGGTGGGATCAGAAGATCTGGCTGTGGACCAAAGTATTATCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-200a-3p(1), mmu-miR-340-5p(1), mmu-miR-369-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TCATCTGATTCAGACTGCCTTACCAG
siRNA sets
GTAAGGCAGTCTGAATCAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCKAT14_504_ORF_1
0.8605
0.181686457
0.906542165
720
ORF sequence:
ATGTGCCAGGAGTTTTTCTGGCCTGGCATTGACCTGTCTGAGTGTCTGCAGTATCCAGACTTCAGTGTTGTAGTCCTTTATAAAAAAGTCATTGTTGCCTTTGGCTTCATGGTTCCTGATGTGAAGTACAACGAAGCTTACATCTCATTTCTGCTTGTTCATCCTGAGTGGAGGAGAGCAGGGATCGCCACATTCATGATCTATCATCTGATTCAGACTGCCTTACCAGCCAGGAAAGGATTCCGGCACCAGACCACGAGATTTTTGTATCGTTTGGTGGGATCAGAAGATCTGGCTGTGGACCAAAGTATTATCAGCCCTTATACTTCTCGGATCTTGAAACCTTATATCAGGCGTGATTATGAGACAAAGCCACCCAAACTACAGCTCCTGTCACAGATCCGTTCCCACCTGCACAGGAGTGACCCTCACTGGACACCTGGACCTGATGCACCCCTCGATTACTGCTATGTCCGACCAAATCACATCCCAACCATCAACTCCATGTGCCAGGAGTTTTTCTGGCCTGGCATTGACCTGTCTGAGTGTCTGCAGTATCCAGACTTCAGTGTTGTAGTCCTTTATAAAAAAGTCATTGTTGCCTTTGGCTTCATGGTTCCTGATGTGAAGTACAACGAAGCTTACATCTCATTTCTGCTTGTTCATCCTGAGTGGAGGAGAGCAGGGATCGCCACATTCATGATCTATCATCTGATTCAG
Peptide sequence:
MCQEFFWPGIDLSECLQYPDFSVVVLYKKVIVAFGFMVPDVKYNEAYISFLLVHPEWRRAGIATFMIYHLIQTALPARKGFRHQTTRFLYRLVGSEDLAVDQSIISPYTSRILKPYIRRDYETKPPKLQLLSQIRSHLHRSDPHWTPGPDAPLDYCYVRPNHIPTINSMCQEFFWPGIDLSECLQYPDFSVVVLYKKVIVAFGFMVPDVKYNEAYISFLLVHPEWRRAGIATFMIYHLIQ
IRESfinder result
IRESfinder score
0.739442037
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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