Gene loci information

Transcript annotation

  • This transcript has been annotated as Bifunctional glutamate/proline–tRNA ligase.

Parent gene

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.t2 TSS g3833.t2 28287301 28287301
chr_3 g3833 g3833.t2 isoform g3833.t2 28287380 28288154
chr_3 g3833 g3833.t2 exon g3833.t2.exon1 28287380 28287422
chr_3 g3833 g3833.t2 cds g3833.t2.CDS1 28287380 28287422
chr_3 g3833 g3833.t2 exon g3833.t2.exon2 28287528 28288154
chr_3 g3833 g3833.t2 cds g3833.t2.CDS2 28287528 28288153
chr_3 g3833 g3833.t2 TTS g3833.t2 NA NA

Sequences

>g3833.t2 Gene=g3833 Length=670
ATGCCAATTAAAGTAAATAGTGATTTAAAGAATCCACCAACCGATGGTGTGGATACCGCT
GAAAATTTTTCATCTCTTCCAAAAGACGCTAACTCTACAAAATCAAATAAACAAGAATCT
CCAACAGCACTTGATGTTGACGATAGAAAGCAAGAAGGTAAATTTGTCGATCTTCCAGGA
GCTGAAATGGGCAAAGTTATTGTTCGCTTTCCTCCTGAAGCATCAGGATATTTGCACATT
GGTCATGCTAAAGCAGCTCTTTTAAATCAATATTATCAACAAGCATTTAATGGAAAACTG
ATTATGAGATTTGACGACACTAATCCAGCTAAAGAAAATGTTCACTTTGAAAACGTTATT
TTAGAGGATTTAGAAATGCTTCAAATTAAACCAGATTTATTCACTTATACATCAGATTAT
TTTGAGCTCATGTTAAAGTATTGTGAACAATTAATGAAAGAGAGAAAAGCATATGCTGAC
GATACTGATCCTGAACTGATGAAGCAAGAACGTGAACAGAGAGTTGAGTCTAAAAACAGA
AACAACTCAATCGAAAAGAATTTTGAAATGTGGAATGAAATGTTAGCTGGCACAGAAAAA
GGACAGAAATGTTGTATCCGAGCGAAAATCGACATGTCTTCTCCAAATGGATGCCTTCGT
GATCCAACAA

>g3833.t2 Gene=g3833 Length=223
MPIKVNSDLKNPPTDGVDTAENFSSLPKDANSTKSNKQESPTALDVDDRKQEGKFVDLPG
AEMGKVIVRFPPEASGYLHIGHAKAALLNQYYQQAFNGKLIMRFDDTNPAKENVHFENVI
LEDLEMLQIKPDLFTYTSDYFELMLKYCEQLMKERKAYADDTDPELMKQEREQRVESKNR
NNSIEKNFEMWNEMLAGTEKGQKCCIRAKIDMSSPNGCLRDPT

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g3833.t2 Coils Coil Coil 167 187 -
7 g3833.t2 Gene3D G3DSA:3.40.50.620 HUPs 32 223 1.6E-58
12 g3833.t2 MobiDBLite mobidb-lite consensus disorder prediction 1 51 -
11 g3833.t2 MobiDBLite mobidb-lite consensus disorder prediction 17 40 -
10 g3833.t2 MobiDBLite mobidb-lite consensus disorder prediction 162 181 -
2 g3833.t2 PANTHER PTHR43382 PROLYL-TRNA SYNTHETASE 35 223 1.3E-107
3 g3833.t2 PRINTS PR00987 Glutamyl-tRNA synthetase signature 69 81 2.9E-11
5 g3833.t2 PRINTS PR00987 Glutamyl-tRNA synthetase signature 83 94 2.9E-11
4 g3833.t2 PRINTS PR00987 Glutamyl-tRNA synthetase signature 98 111 2.9E-11
1 g3833.t2 Pfam PF00749 tRNA synthetases class I (E and Q), catalytic domain 65 222 2.6E-57
9 g3833.t2 ProSitePatterns PS00178 Aminoacyl-transfer RNA synthetases class-I signature. 72 83 -
6 g3833.t2 SUPERFAMILY SSF52374 Nucleotidylyl transferase 65 222 3.75E-44

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