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.t5 TSS g3833.t5 28287301 28287301
chr_3 g3833 g3833.t5 isoform g3833.t5 28287380 28289411
chr_3 g3833 g3833.t5 exon g3833.t5.exon1 28287380 28287422
chr_3 g3833 g3833.t5 cds g3833.t5.CDS1 28287380 28287422
chr_3 g3833 g3833.t5 exon g3833.t5.exon2 28287528 28288203
chr_3 g3833 g3833.t5 cds g3833.t5.CDS2 28287528 28288203
chr_3 g3833 g3833.t5 exon g3833.t5.exon3 28288260 28288522
chr_3 g3833 g3833.t5 cds g3833.t5.CDS3 28288260 28288522
chr_3 g3833 g3833.t5 exon g3833.t5.exon4 28288671 28289411
chr_3 g3833 g3833.t5 cds g3833.t5.CDS4 28288671 28289410
chr_3 g3833 g3833.t5 TTS g3833.t5 28289455 28289455

Sequences

>g3833.t5 Gene=g3833 Length=1723
ATGCCAATTAAAGTAAATAGTGATTTAAAGAATCCACCAACCGATGGTGTGGATACCGCT
GAAAATTTTTCATCTCTTCCAAAAGACGCTAACTCTACAAAATCAAATAAACAAGAATCT
CCAACAGCACTTGATGTTGACGATAGAAAGCAAGAAGGTAAATTTGTCGATCTTCCAGGA
GCTGAAATGGGCAAAGTTATTGTTCGCTTTCCTCCTGAAGCATCAGGATATTTGCACATT
GGTCATGCTAAAGCAGCTCTTTTAAATCAATATTATCAACAAGCATTTAATGGAAAACTG
ATTATGAGATTTGACGACACTAATCCAGCTAAAGAAAATGTTCACTTTGAAAACGTTATT
TTAGAGGATTTAGAAATGCTTCAAATTAAACCAGATTTATTCACTTATACATCAGATTAT
TTTGAGCTCATGTTAAAGTATTGTGAACAATTAATGAAAGAGAGAAAAGCATATGCTGAC
GATACTGATCCTGAACTGATGAAGCAAGAACGTGAACAGAGAGTTGAGTCTAAAAACAGA
AACAACTCAATCGAAAAGAATTTTGAAATGTGGAATGAAATGTTAGCTGGCACAGAAAAA
GGACAGAAATGTTGTATCCGAGCGAAAATCGACATGTCTTCTCCAAATGGATGCCTTCGT
GATCCAACAATTTATCGTTGCAAAAATGAGCCACATCCACGTACTGGAACTAAATACAAA
GTTTATCCAACTTATGATTTTGCATGTCCAATTGTTGATGCAATTGAAAATGTAACTCAT
ACTCTTCGTACAATGGAATATCACGATCGTGATGATCAATTTTATTGGTTTATTGATGCA
TTAAAACTTCGTAAACCATATATTTGGGAATATTCTCGTTTAAATATGACTAACACAGTA
TTATCAAAACGTAAATTAACTTGGTTTGTTGAAAACGGTCTTGTTGATGGTTGGGATGAT
CCTCGCTTTCCTACAGTTCGAGGTATTTTACGTCGTGGTATGACTGTTGAAGGTTTAAAA
CAATTCATTATTGCACAAGGTTCTAGTAAAGCTGTTGTATTTATGGAATGGGATAAAATT
TGGGCTTTCAACAAAAAAGTCATCGATCCAATTGCACCTAGATACATTGCATTAGAAAAC
GACAATCGTATAATTGTCAAAGTTAATAATGCAATATTACAAGCTCTTGAAGTTCCAAGA
CATCCCAAAAATAATGAAGTTGGCACAAAAACTATTTGGGTTGGCCCAGAAATTTATATT
GACTATGCTGATGCTGAATCCTTAAAAGAAGGTGAAAATGCAACATTTATAAATTGGGGT
AATTTAAGAATCAAAAAGATTCATAAAGAAAGTGAAAAAATTACTTCTATCGATGCTGAA
TTGAATTTGAGTGATACCGATTTCAAAAAGACATTAAAACTGACATGGCTTTGTAAACAG
GATCCTTCAGAATATCCAACAACTTATTGCGTTTATTTCGATCATATAATTAGCAAAGCT
GTTCTTGGTAAAAATGAAGACTTTAAAGCATATATCGGACATGAGACTAGAAAAGAAACA
AAAATGTTGGCTGATCCTGAATTGAAAAAATGTCAGAAAGGCGATATCATTCAACTACAA
CGGCGCGGATTTTTCAAAGTTGATCAAGCTTATGCTCCAGCTAGCGAAATTTCAGGATCA
GAACGTCCAATTGTATTGTACTTTATTCCTGATGGTCACAAAA

>g3833.t5 Gene=g3833 Length=574
MPIKVNSDLKNPPTDGVDTAENFSSLPKDANSTKSNKQESPTALDVDDRKQEGKFVDLPG
AEMGKVIVRFPPEASGYLHIGHAKAALLNQYYQQAFNGKLIMRFDDTNPAKENVHFENVI
LEDLEMLQIKPDLFTYTSDYFELMLKYCEQLMKERKAYADDTDPELMKQEREQRVESKNR
NNSIEKNFEMWNEMLAGTEKGQKCCIRAKIDMSSPNGCLRDPTIYRCKNEPHPRTGTKYK
VYPTYDFACPIVDAIENVTHTLRTMEYHDRDDQFYWFIDALKLRKPYIWEYSRLNMTNTV
LSKRKLTWFVENGLVDGWDDPRFPTVRGILRRGMTVEGLKQFIIAQGSSKAVVFMEWDKI
WAFNKKVIDPIAPRYIALENDNRIIVKVNNAILQALEVPRHPKNNEVGTKTIWVGPEIYI
DYADAESLKEGENATFINWGNLRIKKIHKESEKITSIDAELNLSDTDFKKTLKLTWLCKQ
DPSEYPTTYCVYFDHIISKAVLGKNEDFKAYIGHETRKETKMLADPELKKCQKGDIIQLQ
RRGFFKVDQAYAPASEISGSERPIVLYFIPDGHK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
16 g3833.t5 CDD cd00807 GlnRS_core 65 374 8.89742E-141
15 g3833.t5 Coils Coil Coil 167 187 -
12 g3833.t5 Gene3D G3DSA:3.40.50.620 HUPs 34 374 1.5E-129
13 g3833.t5 Gene3D G3DSA:2.40.240.10 Ribosomal Protein L25; Chain P 375 551 2.4E-22
14 g3833.t5 Gene3D G3DSA:2.40.240.10 Ribosomal Protein L25; Chain P 380 482 2.4E-22
4 g3833.t5 Hamap MF_02076 Glutamate–tRNA ligase [gltX]. 4 569 30.728867
19 g3833.t5 MobiDBLite mobidb-lite consensus disorder prediction 1 51 -
18 g3833.t5 MobiDBLite mobidb-lite consensus disorder prediction 17 40 -
3 g3833.t5 PANTHER PTHR43382 PROLYL-TRNA SYNTHETASE 35 574 0.0
6 g3833.t5 PRINTS PR00987 Glutamyl-tRNA synthetase signature 69 81 2.8E-17
9 g3833.t5 PRINTS PR00987 Glutamyl-tRNA synthetase signature 83 94 2.8E-17
8 g3833.t5 PRINTS PR00987 Glutamyl-tRNA synthetase signature 98 111 2.8E-17
5 g3833.t5 PRINTS PR00987 Glutamyl-tRNA synthetase signature 243 253 2.8E-17
7 g3833.t5 PRINTS PR00987 Glutamyl-tRNA synthetase signature 259 267 2.8E-17
1 g3833.t5 Pfam PF00749 tRNA synthetases class I (E and Q), catalytic domain 65 369 2.0E-117
2 g3833.t5 Pfam PF03950 tRNA synthetases class I (E and Q), anti-codon binding domain 372 548 4.6E-32
17 g3833.t5 ProSitePatterns PS00178 Aminoacyl-transfer RNA synthetases class-I signature. 72 83 -
10 g3833.t5 SUPERFAMILY SSF52374 Nucleotidylyl transferase 65 377 3.75E-85
11 g3833.t5 SUPERFAMILY SSF50715 Ribosomal protein L25-like 372 573 3.82E-43
20 g3833.t5 TIGRFAM TIGR00463 gltX_arch: glutamate–tRNA ligase 37 551 1.8E-149

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:0005737 cytoplasm CC
GO:0004818 glutamate-tRNA ligase activity MF
GO:0000166 nucleotide binding MF
GO:0006418 tRNA aminoacylation for protein translation BP
GO:0043039 tRNA aminoacylation BP
GO:0006412 translation BP
GO:0006424 glutamyl-tRNA aminoacylation BP
GO:0004812 aminoacyl-tRNA ligase activity MF

KEGG

Orthology

Pathway

  • This transcript belongs to the following pathways

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