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mmu_circGalnt14_256
Basic information of circular RNA
PanCircBase ID:
mmu_circGalnt14_256
mm39_Chr. Position ID:
chr17|73842233|73843908|-
Gene name:
Galnt14
Transcript:
ENSMUST00000024858.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
6,5,4
Exon/intron offsets:
0,283,1607
Genomic length:
1675
Exon/intron sizes in nt:
122,66,68
Flanking exon/introns:
chr17:73833318-73842233|chr17:73843908-73852019
Splice length:
256
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
TGTGTTAAACCGAACCCCTATGCATCTGATCCAGGAAATCATATTAGTGGATGACTTTAGCAATGACCCCGAGGACTGCAAGCAACTCATCAAATTGCCCAAGGTGAAGTGCTTGCGCAACAATGAGCGGCAAGGTCTGGTCCGGTCTCGGATGCGAGGTGCTGACATTGCCCAAGGCACCACTCTGACCTTCCTGGACAGCCATTGTGAGGTGAACAGGGATTGGCTGCAGCCCCTGTTACACAGGGTCAAAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTGGACAGCCATTGTGAGGT
59.96
AGTCCTCGGGGTCATTGCTA
60.33
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCTTCCTGGACAGCCATTGT
59.96
AGTCCTCGGGGTCATTGCTA
60.33
145
PCR template sequence:
AGGTGCTGACATTGCCCAAGGCACCACTCTGACCTTCCTGGACAGCCATTGTGAGGTGAACAGGGATTGGCTGCAGCCCCTGTTACACAGGGTCAAAGAGTGTGTTAAACCGAACCCCTATGCATCTGATCCAGGAAATCATATTAGTGGATGACTTTAGCAATGACCCCGAGGACTGCAAGCAACTCATCAAATTGCCC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-10b-5p(1), mmu-miR-540-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CAGGGTCAAAGAGTGTGTTAAACCGA
siRNA sets
TTAACACACTCTTTGACCC, TAACACACTCTTTGACCCT, TTTAACACACTCTTTGACC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCGALNT14_256_ORF_1
1.0022
0.304472236
0.488363413
291
ORF sequence:
ATGCATCTGATCCAGGAAATCATATTAGTGGATGACTTTAGCAATGACCCCGAGGACTGCAAGCAACTCATCAAATTGCCCAAGGTGAAGTGCTTGCGCAACAATGAGCGGCAAGGTCTGGTCCGGTCTCGGATGCGAGGTGCTGACATTGCCCAAGGCACCACTCTGACCTTCCTGGACAGCCATTGTGAGGTGAACAGGGATTGGCTGCAGCCCCTGTTACACAGGGTCAAAGAGTGTGTTAAACCGAACCCCTATGCATCTGATCCAGGAAATCATATTAGTGGATGA
Peptide sequence:
MHLIQEIILVDDFSNDPEDCKQLIKLPKVKCLRNNERQGLVRSRMRGADIAQGTTLTFLDSHCEVNRDWLQPLLHRVKECVKPNPYASDPGNHISG
IRESfinder result
IRESfinder score
0.257117192
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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