General information for g14102.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative tRNA dimethylallyltransferase.
Parent gene
- The parent gene g14102 is located on chr_1: 34607544..34614159 (- 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 | g14102 | g14102.t3 | TTS | g14102.t3 | 34607418 | 34607418 |
| chr_1 | g14102 | g14102.t3 | isoform | g14102.t3 | 34607544 | 34608784 |
| chr_1 | g14102 | g14102.t3 | exon | g14102.t3.exon1 | 34607544 | 34608102 |
| chr_1 | g14102 | g14102.t3 | cds | g14102.t3.CDS1 | 34607544 | 34608102 |
| chr_1 | g14102 | g14102.t3 | exon | g14102.t3.exon2 | 34608684 | 34608784 |
| chr_1 | g14102 | g14102.t3 | cds | g14102.t3.CDS2 | 34608684 | 34608745 |
| chr_1 | g14102 | g14102.t3 | TSS | g14102.t3 | NA | NA |
Sequences
>g14102.t3 Gene=g14102 Length=660
GTAACACTGAATCAGCGATTGAATAAAAGAGTCGATTCGATGGTAAAAGATGGTCTGCTT
GAAGAGATAAGAACATTTTATGAGGAAAATGTATTGAACCGAAATGTCGACTATGAGGAA
GGAATGTTGCAAACAATCGGTTTCAAAGAATTCATACCGTACCTCGAAAAGTACGACAAA
AGTTACGATACGCTAATCAACAAATTCGTGGAAGCACCTGAATTGTTTAATGAAGAAGAA
ATACCTGAAAGCTATAAATCATTACTAAAATGTCTCGAAGAGTTGAAAATGGTAACTCAG
AGATATTCGAAGCGACAGTTGAAATGGATCAAGAATAGATTTCTTGGTAGTGAACAACGT
GAAGTTCCAAATGTCTATGCGCTAGACACAACTGATGTTAGCAAATGGAAAGAGGCTGTG
TATGAACCAGCAGAGGAGGCAATTTTGGCATACATTAATGATGAACCAATAAAATTGAAA
CCATTAGAGAAATTAAAACGTCTCGGTGAAGGACTTAATGAAGAAACAAATCATTATTGT
GAAACATGCGATCGCCCTTTCATTGGTGATTTTCAATGGCAACTTCATTTGAAATCAAAA
AAACACAGGCACAAGTTAGCCTCAATCGCAAAGAAAGCTAAACAACTGAAACAAGAGTGA
>g14102.t3 Gene=g14102 Length=206
MVKDGLLEEIRTFYEENVLNRNVDYEEGMLQTIGFKEFIPYLEKYDKSYDTLINKFVEAP
ELFNEEEIPESYKSLLKCLEELKMVTQRYSKRQLKWIKNRFLGSEQREVPNVYALDTTDV
SKWKEAVYEPAEEAILAYINDEPIKLKPLEKLKRLGEGLNEETNHYCETCDRPFIGDFQW
QLHLKSKKHRHKLASIAKKAKQLKQE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g14102.t3 | Coils | Coil | Coil | 186 | 206 | - |
| 8 | g14102.t3 | Gene3D | G3DSA:3.40.50.300 | - | 1 | 161 | 5.7E-31 |
| 9 | g14102.t3 | Gene3D | G3DSA:3.30.160.60 | Classic Zinc Finger | 162 | 205 | 5.6E-7 |
| 3 | g14102.t3 | PANTHER | PTHR11088 | TRNA DIMETHYLALLYLTRANSFERASE | 1 | 143 | 6.6E-20 |
| 4 | g14102.t3 | PANTHER | PTHR11088:SF25 | TRNA DIMETHYLALLYLTRANSFERASE | 1 | 143 | 6.6E-20 |
| 2 | g14102.t3 | Pfam | PF01715 | IPP transferase | 1 | 100 | 6.8E-13 |
| 1 | g14102.t3 | Pfam | PF12171 | Zinc-finger double-stranded RNA-binding | 165 | 190 | 3.9E-9 |
| 7 | g14102.t3 | ProSitePatterns | PS00028 | Zinc finger C2H2 type domain signature. | 167 | 189 | - |
| 6 | g14102.t3 | SMART | SM00451 | ZnF_U1_5 | 162 | 196 | 4.0E-4 |
| 5 | g14102.t3 | SUPERFAMILY | SSF57667 | beta-beta-alpha zinc fingers | 155 | 200 | 3.12E-10 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0008270 | zinc ion binding | MF |
| GO:0003676 | nucleic acid binding | MF |
KEGG
Orthology
This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
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.
