General information for g17015.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Bifunctional glutamate/proline–tRNA ligase.
Parent gene
- The parent gene g17015 is located on chr_4: 12162767..12163690 (+ 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_4 | g17015 | g17015.t3 | TSS | g17015.t3 | 12156272 | 12156272 |
| chr_4 | g17015 | g17015.t3 | isoform | g17015.t3 | 12156363 | 12157083 |
| chr_4 | g17015 | g17015.t3 | exon | g17015.t3.exon1 | 12156363 | 12156405 |
| chr_4 | g17015 | g17015.t3 | cds | g17015.t3.CDS1 | 12156363 | 12156405 |
| chr_4 | g17015 | g17015.t3 | exon | g17015.t3.exon2 | 12156511 | 12157083 |
| chr_4 | g17015 | g17015.t3 | cds | g17015.t3.CDS2 | 12156511 | 12157082 |
| chr_4 | g17015 | g17015.t3 | TTS | g17015.t3 | 12157497 | 12157497 |
Sequences
>g17015.t3 Gene=g17015 Length=616
ATGCCAATCAAAGTAATTTGTGATTTAAAGAATCCACCAATTGGTGCTTTGGTTGTTGCC
GAAATTATTAAATCAACTGATCCAGTTGTAATTGAATGGAGCGATAAAGAAGCATCTATC
AATTTTGGTAACAATTCACTTTCATGTGTGAGCAACAACGACCTTTTAAGAGCTCTAGCT
CGACAAGCCGGAAGTTATCAGCTTTATGGAAAAACTCCGATTGAAAGAACTCAAATTGAT
CATTGGTTGACTTACTGCCTCAATTATGATGCTCATATTGATGAAGCAATTCAATATTTG
AATAAATGTTTAGCTCCATTGACTTATTTAGTGTCAAATAAGCTGACAATTGCTGATTTA
GCTGTGTTCAATGAATTTTTTGTCAAGTATGATCTTTTGAAGAAATCTGGTTTGCCTAGT
CATGTTCAACGCTGGTATAACCTCATCAGTTCATTGCCAACAGTTCAAACTGTGCTTTCA
TCACTTCCAAAAGATGGTAAATCTACAAAATCAAAGAAACAAGAAAAACAAGAATTTTCA
GCAGCTCTTGGTGTTGGCGATAGAAAGCAAGAAGGAAAATTTGTCGATCTTCCAGGAGCT
GAAATGGGAAAAGTTG
>g17015.t3 Gene=g17015 Length=205
MPIKVICDLKNPPIGALVVAEIIKSTDPVVIEWSDKEASINFGNNSLSCVSNNDLLRALA
RQAGSYQLYGKTPIERTQIDHWLTYCLNYDAHIDEAIQYLNKCLAPLTYLVSNKLTIADL
AVFNEFFVKYDLLKKSGLPSHVQRWYNLISSLPTVQTVLSSLPKDGKSTKSKKQEKQEFS
AALGVGDRKQEGKFVDLPGAEMGKV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g17015.t3 | Gene3D | G3DSA:1.20.1050.130 | - | 1 | 171 | 9.0E-41 |
| 5 | g17015.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 163 | 185 | - |
| 2 | g17015.t3 | PANTHER | PTHR43382 | PROLYL-TRNA SYNTHETASE | 44 | 205 | 9.3E-35 |
| 3 | g17015.t3 | PANTHER | PTHR43382:SF2 | BIFUNCTIONAL GLUTAMATE/PROLINE–TRNA LIGASE | 44 | 205 | 9.3E-35 |
| 1 | g17015.t3 | Pfam | PF14497 | Glutathione S-transferase, C-terminal domain | 91 | 161 | 2.2E-5 |
| 4 | g17015.t3 | SUPERFAMILY | SSF47616 | GST C-terminal domain-like | 54 | 158 | 3.06E-17 |
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 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. There were no conditions that were differentially expressed