General information for g14104.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative tRNA dimethylallyltransferase.
Parent gene
- The parent gene g14104 is located on chr_1: 34642597..34653190 (- strand)
Gene structure
- The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.
| Chromosome | Gene | Transcript | Category | ID | Start | End |
|---|---|---|---|---|---|---|
| chr_1 | g14104 | g14104.t1 | isoform | g14104.t1 | 34642597 | 34651771 |
| chr_1 | g14104 | g14104.t1 | exon | g14104.t1.exon1 | 34642597 | 34642914 |
| chr_1 | g14104 | g14104.t1 | cds | g14104.t1.CDS1 | 34642597 | 34642914 |
| chr_1 | g14104 | g14104.t1 | TTS | g14104.t1 | 34642616 | 34642616 |
| chr_1 | g14104 | g14104.t1 | exon | g14104.t1.exon2 | 34651333 | 34651470 |
| chr_1 | g14104 | g14104.t1 | cds | g14104.t1.CDS2 | 34651333 | 34651470 |
| chr_1 | g14104 | g14104.t1 | exon | g14104.t1.exon3 | 34651652 | 34651771 |
| chr_1 | g14104 | g14104.t1 | cds | g14104.t1.CDS3 | 34651652 | 34651771 |
| chr_1 | g14104 | g14104.t1 | TSS | g14104.t1 | NA | NA |
Sequences
>g14104.t1 Gene=g14104 Length=576
ATGTTGCGAAAAGTTCCATTAATAGTTATTCTGGGTTCAACTGGAACAGGGAAGACAAAA
CTTTCAATAGAGCTCGCTCGTCGATTTAATGCTGAAATAATTTCTGCCGATTCTATGCAA
GTGTATAAAGGACTGAGCATCGCAACTGCAAAAGCCACAAATGATGAACAAATGCAAGCA
CCACACCATTTACTAGATGTTGCTACCCCACATGAGCCATTTACCGTAACGCACTTTCGT
GATAAGGCTCTACCGATAATAGATAATTTATTGCAACGATCAAAGAGTCCGATCATTGTT
GGTGGTACAAACTATTACATCGAAAGCATTCTTTGGCACAATCTGGTTGCGCCGAGTATT
GGATATAAGAGAAAAATTGATGATTATGATAATGATGGCAATAGCGATGGAGATGAATGT
TTGAGTCAAGAGATCAGAGATTTTGTGAGTGACTCAGCAATGGTTGAAAAAATGTTGGAC
ATGGAATCGACAAAGCTTTATGAATATCTCAAACTGATTGACCCTTTAACAGCAAAAAGG
TTGCATCCTAATAACAAAAGAAAAATTATGAGGTGA
>g14104.t1 Gene=g14104 Length=191
MLRKVPLIVILGSTGTGKTKLSIELARRFNAEIISADSMQVYKGLSIATAKATNDEQMQA
PHHLLDVATPHEPFTVTHFRDKALPIIDNLLQRSKSPIIVGGTNYYIESILWHNLVAPSI
GYKRKIDDYDNDGNSDGDECLSQEIRDFVSDSAMVEKMLDMESTKLYEYLKLIDPLTAKR
LHPNNKRKIMR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g14104.t1 | Gene3D | G3DSA:3.40.50.300 | - | 2 | 151 | 2.4E-50 |
| 6 | g14104.t1 | Gene3D | G3DSA:1.10.20.140 | - | 152 | 191 | 7.4E-9 |
| 2 | g14104.t1 | PANTHER | PTHR11088 | TRNA DIMETHYLALLYLTRANSFERASE | 4 | 191 | 1.4E-54 |
| 3 | g14104.t1 | PANTHER | PTHR11088:SF25 | TRNA DIMETHYLALLYLTRANSFERASE | 4 | 191 | 1.4E-54 |
| 1 | g14104.t1 | Pfam | PF01715 | IPP transferase | 40 | 191 | 7.1E-34 |
| 8 | g14104.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 17 | - |
| 9 | g14104.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 4 | - |
| 10 | g14104.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 5 | 12 | - |
| 11 | g14104.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 13 | 17 | - |
| 7 | g14104.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 18 | 191 | - |
| 4 | g14104.t1 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 7 | 123 | 1.86E-15 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
KEGG
Orthology
- This transcript has been annotated with K00791 (tRNA dimethylallyltransferase)
Pathway
- This transcript belongs to the following pathways
Expression
Transcript expression in Pv11 cells
TPM values are indicated as average +/- STDEV. 
Differential expression
Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below.
