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.t7 TSS g3833.t7 28287301 28287301
chr_3 g3833 g3833.t7 isoform g3833.t7 28287380 28291097
chr_3 g3833 g3833.t7 exon g3833.t7.exon1 28287380 28287422
chr_3 g3833 g3833.t7 cds g3833.t7.CDS1 28287380 28287422
chr_3 g3833 g3833.t7 exon g3833.t7.exon2 28287528 28288203
chr_3 g3833 g3833.t7 cds g3833.t7.CDS2 28287528 28288203
chr_3 g3833 g3833.t7 exon g3833.t7.exon3 28288260 28288348
chr_3 g3833 g3833.t7 cds g3833.t7.CDS3 28288260 28288348
chr_3 g3833 g3833.t7 exon g3833.t7.exon4 28290886 28291097
chr_3 g3833 g3833.t7 cds g3833.t7.CDS4 28290886 28291097
chr_3 g3833 g3833.t7 TTS g3833.t7 28291200 28291200

Sequences

>g3833.t7 Gene=g3833 Length=1020
ATGCCAATTAAAGTAAATAGTGATTTAAAGAATCCACCAACCGATGGTGTGGATACCGCT
GAAAATTTTTCATCTCTTCCAAAAGACGCTAACTCTACAAAATCAAATAAACAAGAATCT
CCAACAGCACTTGATGTTGACGATAGAAAGCAAGAAGGTAAATTTGTCGATCTTCCAGGA
GCTGAAATGGGCAAAGTTATTGTTCGCTTTCCTCCTGAAGCATCAGGATATTTGCACATT
GGTCATGCTAAAGCAGCTCTTTTAAATCAATATTATCAACAAGCATTTAATGGAAAACTG
ATTATGAGATTTGACGACACTAATCCAGCTAAAGAAAATGTTCACTTTGAAAACGTTATT
TTAGAGGATTTAGAAATGCTTCAAATTAAACCAGATTTATTCACTTATACATCAGATTAT
TTTGAGCTCATGTTAAAGTATTGTGAACAATTAATGAAAGAGAGAAAAGCATATGCTGAC
GATACTGATCCTGAACTGATGAAGCAAGAACGTGAACAGAGAGTTGAGTCTAAAAACAGA
AACAACTCAATCGAAAAGAATTTTGAAATGTGGAATGAAATGTTAGCTGGCACAGAAAAA
GGACAGAAATGTTGTATCCGAGCGAAAATCGACATGTCTTCTCCAAATGGATGCCTTCGT
GATCCAACAATTTATCGTTGCAAAAATGAGCCACATCCACGTACTGGAACTAAATACAAA
GTTTATCCAACTTATGATTTTGCATGTCCAATTGTTGATGCAATTGAAAATGTAACTCAT
ACTCTTCGTACAATGGAATATCACGATCCATTCTGTGGAGACATTCTTTGTGAAGAAAAG
ATCAAGACAGATAGTGCACGTGAAGAGACCGATGAAGCTGTTCAAGGACCTGCAATGGGA
GCAAAATCCTTGTGTATTCCATTTGAACAGCCAGCTGAAATTCAAGAAAGCGACAAATGC
ATTCATCCAGAGTGCAACAACAAACCGAAGTTCTACACACTTTTCGGAAGAAGCTACTAA

>g3833.t7 Gene=g3833 Length=339
MPIKVNSDLKNPPTDGVDTAENFSSLPKDANSTKSNKQESPTALDVDDRKQEGKFVDLPG
AEMGKVIVRFPPEASGYLHIGHAKAALLNQYYQQAFNGKLIMRFDDTNPAKENVHFENVI
LEDLEMLQIKPDLFTYTSDYFELMLKYCEQLMKERKAYADDTDPELMKQEREQRVESKNR
NNSIEKNFEMWNEMLAGTEKGQKCCIRAKIDMSSPNGCLRDPTIYRCKNEPHPRTGTKYK
VYPTYDFACPIVDAIENVTHTLRTMEYHDPFCGDILCEEKIKTDSAREETDEAVQGPAMG
AKSLCIPFEQPAEIQESDKCIHPECNNKPKFYTLFGRSY

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g3833.t7 Coils Coil Coil 167 187 -
12 g3833.t7 Gene3D G3DSA:3.40.50.620 HUPs 66 269 2.2E-89
13 g3833.t7 Gene3D G3DSA:3.90.800.10 - 138 242 2.2E-89
18 g3833.t7 MobiDBLite mobidb-lite consensus disorder prediction 1 51 -
17 g3833.t7 MobiDBLite mobidb-lite consensus disorder prediction 17 40 -
3 g3833.t7 PANTHER PTHR43382 PROLYL-TRNA SYNTHETASE 35 269 2.0E-156
4 g3833.t7 PANTHER PTHR43382 PROLYL-TRNA SYNTHETASE 270 339 2.0E-156
6 g3833.t7 PRINTS PR00987 Glutamyl-tRNA synthetase signature 69 81 2.9E-18
9 g3833.t7 PRINTS PR00987 Glutamyl-tRNA synthetase signature 83 94 2.9E-18
8 g3833.t7 PRINTS PR00987 Glutamyl-tRNA synthetase signature 98 111 2.9E-18
5 g3833.t7 PRINTS PR00987 Glutamyl-tRNA synthetase signature 243 253 2.9E-18
7 g3833.t7 PRINTS PR00987 Glutamyl-tRNA synthetase signature 259 267 2.9E-18
1 g3833.t7 Pfam PF00749 tRNA synthetases class I (E and Q), catalytic domain 65 269 5.2E-81
2 g3833.t7 Pfam PF09180 Prolyl-tRNA synthetase, C-terminal 270 339 1.0E-16
15 g3833.t7 ProSitePatterns PS00178 Aminoacyl-transfer RNA synthetases class-I signature. 72 83 -
16 g3833.t7 SMART SM00946 ProRS_C_1_2 255 339 3.6E-16
10 g3833.t7 SUPERFAMILY SSF52374 Nucleotidylyl transferase 65 270 2.95E-63
11 g3833.t7 SUPERFAMILY SSF64586 C-terminal domain of ProRS 253 339 2.35E-12

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:0006433 prolyl-tRNA aminoacylation BP
GO:0005524 ATP binding MF
GO:0005737 cytoplasm CC
GO:0000166 nucleotide binding MF
GO:0006418 tRNA aminoacylation for protein translation BP
GO:0043039 tRNA aminoacylation BP
GO:0004812 aminoacyl-tRNA ligase activity MF
GO:0004827 proline-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.

Raw TPM values