General information for g3833.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 g3833 is located on chr_3: 28290022..28291097 (+ 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_3 | g3833 | g3833.t3 | TSS | g3833.t3 | 28287301 | 28287301 |
| chr_3 | g3833 | g3833.t3 | isoform | g3833.t3 | 28287380 | 28288521 |
| chr_3 | g3833 | g3833.t3 | exon | g3833.t3.exon1 | 28287380 | 28288203 |
| chr_3 | g3833 | g3833.t3 | cds | g3833.t3.CDS1 | 28287503 | 28288203 |
| chr_3 | g3833 | g3833.t3 | exon | g3833.t3.exon2 | 28288260 | 28288521 |
| chr_3 | g3833 | g3833.t3 | cds | g3833.t3.CDS2 | 28288260 | 28288521 |
| chr_3 | g3833 | g3833.t3 | TTS | g3833.t3 | 28289455 | 28289455 |
Sequences
>g3833.t3 Gene=g3833 Length=1086
ATGCCAATTAAAGTAAATAGTGATTTAAAGAATCCACCAACCGGTAAGATATAGATTGAA
TAAAAAGTTACTTATGTATAAAGCTTAAAATTAATTATTTTCAATTTTTATGAAATATTT
TAAATGTTTTGTGAAATAAAATTTACAGATGGTGTGGATACCGCTGAAAATTTTTCATCT
CTTCCAAAAGACGCTAACTCTACAAAATCAAATAAACAAGAATCTCCAACAGCACTTGAT
GTTGACGATAGAAAGCAAGAAGGTAAATTTGTCGATCTTCCAGGAGCTGAAATGGGCAAA
GTTATTGTTCGCTTTCCTCCTGAAGCATCAGGATATTTGCACATTGGTCATGCTAAAGCA
GCTCTTTTAAATCAATATTATCAACAAGCATTTAATGGAAAACTGATTATGAGATTTGAC
GACACTAATCCAGCTAAAGAAAATGTTCACTTTGAAAACGTTATTTTAGAGGATTTAGAA
ATGCTTCAAATTAAACCAGATTTATTCACTTATACATCAGATTATTTTGAGCTCATGTTA
AAGTATTGTGAACAATTAATGAAAGAGAGAAAAGCATATGCTGACGATACTGATCCTGAA
CTGATGAAGCAAGAACGTGAACAGAGAGTTGAGTCTAAAAACAGAAACAACTCAATCGAA
AAGAATTTTGAAATGTGGAATGAAATGTTAGCTGGCACAGAAAAAGGACAGAAATGTTGT
ATCCGAGCGAAAATCGACATGTCTTCTCCAAATGGATGCCTTCGTGATCCAACAATTTAT
CGTTGCAAAAATGAGCCACATCCACGTACTGGAACTAAATACAAAGTTTATCCAACTTAT
GATTTTGCATGTCCAATTGTTGATGCAATTGAAAATGTAACTCATACTCTTCGTACAATG
GAATATCACGATCGTGATGATCAATTTTATTGGTTTATTGATGCATTAAAACTTCGTAAA
CCATATATTTGGGAATATTCTCGTTTAAATATGACTAACACAGTATTATCAAAACGTAAA
TTAACTTGGTTTGTTGAAAACGGTCTTGTTGATGGTTGGGATGATCCTCGCTTTCCTACA
GTTCGA
>g3833.t3 Gene=g3833 Length=321
MFCEIKFTDGVDTAENFSSLPKDANSTKSNKQESPTALDVDDRKQEGKFVDLPGAEMGKV
IVRFPPEASGYLHIGHAKAALLNQYYQQAFNGKLIMRFDDTNPAKENVHFENVILEDLEM
LQIKPDLFTYTSDYFELMLKYCEQLMKERKAYADDTDPELMKQEREQRVESKNRNNSIEK
NFEMWNEMLAGTEKGQKCCIRAKIDMSSPNGCLRDPTIYRCKNEPHPRTGTKYKVYPTYD
FACPIVDAIENVTHTLRTMEYHDRDDQFYWFIDALKLRKPYIWEYSRLNMTNTVLSKRKL
TWFVENGLVDGWDDPRFPTVR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g3833.t3 | Coils | Coil | Coil | 161 | 181 | - |
| 9 | g3833.t3 | Gene3D | G3DSA:3.40.50.620 | HUPs | 27 | 321 | 1.3E-112 |
| 12 | g3833.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 18 | 34 | - |
| 13 | g3833.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 18 | 43 | - |
| 2 | g3833.t3 | PANTHER | PTHR43382 | PROLYL-TRNA SYNTHETASE | 29 | 321 | 1.3E-187 |
| 4 | g3833.t3 | PRINTS | PR00987 | Glutamyl-tRNA synthetase signature | 63 | 75 | 2.3E-18 |
| 3 | g3833.t3 | PRINTS | PR00987 | Glutamyl-tRNA synthetase signature | 77 | 88 | 2.3E-18 |
| 6 | g3833.t3 | PRINTS | PR00987 | Glutamyl-tRNA synthetase signature | 92 | 105 | 2.3E-18 |
| 5 | g3833.t3 | PRINTS | PR00987 | Glutamyl-tRNA synthetase signature | 237 | 247 | 2.3E-18 |
| 7 | g3833.t3 | PRINTS | PR00987 | Glutamyl-tRNA synthetase signature | 253 | 261 | 2.3E-18 |
| 1 | g3833.t3 | Pfam | PF00749 | tRNA synthetases class I (E and Q), catalytic domain | 59 | 320 | 4.3E-105 |
| 11 | g3833.t3 | ProSitePatterns | PS00178 | Aminoacyl-transfer RNA synthetases class-I signature. | 66 | 77 | - |
| 8 | g3833.t3 | SUPERFAMILY | SSF52374 | Nucleotidylyl transferase | 59 | 311 | 1.23E-75 |
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:0005524 | ATP binding | MF |
| GO:0006418 | tRNA aminoacylation for protein translation | BP |
| GO:0000166 | nucleotide binding | MF |
| GO:0043039 | tRNA aminoacylation | BP |
| GO:0004812 | aminoacyl-tRNA ligase activity | 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. There were no conditions that were differentially expressed