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_4 g17015 g17015.t6 TSS g17015.t6 12156272 12156272
chr_4 g17015 g17015.t6 isoform g17015.t6 12156363 12157922
chr_4 g17015 g17015.t6 exon g17015.t6.exon1 12156363 12156405
chr_4 g17015 g17015.t6 cds g17015.t6.CDS1 12156363 12156405
chr_4 g17015 g17015.t6 exon g17015.t6.exon2 12156511 12157603
chr_4 g17015 g17015.t6 cds g17015.t6.CDS2 12156511 12157603
chr_4 g17015 g17015.t6 exon g17015.t6.exon3 12157660 12157922
chr_4 g17015 g17015.t6 cds g17015.t6.CDS3 12157660 12157921
chr_4 g17015 g17015.t6 TTS g17015.t6 12158328 12158328

Sequences

>g17015.t6 Gene=g17015 Length=1399
ATGCCAATCAAAGTAATTTGTGATTTAAAGAATCCACCAATTGGTGCTTTGGTTGTTGCC
GAAATTATTAAATCAACTGATCCAGTTGTAATTGAATGGAGCGATAAAGAAGCATCTATC
AATTTTGGTAACAATTCACTTTCATGTGTGAGCAACAACGACCTTTTAAGAGCTCTAGCT
CGACAAGCCGGAAGTTATCAGCTTTATGGAAAAACTCCGATTGAAAGAACTCAAATTGAT
CATTGGTTGACTTACTGCCTCAATTATGATGCTCATATTGATGAAGCAATTCAATATTTG
AATAAATGTTTAGCTCCATTGACTTATTTAGTGTCAAATAAGCTGACAATTGCTGATTTA
GCTGTGTTCAATGAATTTTTTGTCAAGTATGATCTTTTGAAGAAATCTGGTTTGCCTAGT
CATGTTCAACGCTGGTATAACCTCATCAGTTCATTGCCAACAGTTCAAACTGTGCTTTCA
TCACTTCCAAAAGATGGTAAATCTACAAAATCAAAGAAACAAGAAAAACAAGAATTTTCA
GCAGCTCTTGGTGTTGGCGATAGAAAGCAAGAAGGAAAATTTGTCGATCTTCCAGGAGCT
GAAATGGGAAAAGTTGTTGTTCGCTTTCCTCCTGAAGCATCAGGGTATTTGCACATTGGT
CATGCTAAAGCAGCTCTTTTAAATCAATATTATCAGCAAGCATTTGATGGAAAATTGATT
ATGAGATTTGATGACACCAATCCAGCTAAAGAAAATGTTCATTTTGAGGAAGTCATTTTG
GAAGATGTAGAAATGCTTCAAATTAAACCTGATGCATTCACTTACACCTCAGATTATTTT
GATATCATGCTTAAATATTGTGAGCAATTAATGAAAGAAGGAAAAGCATATGCTGATGAT
ACTGATCCTGAATTGATGAAACAAGAACGTGAACAGAAAGTTGAGTCAAAGAACCGAAAT
AATTCGGTTGAAAAGAATTTTGAAATGTGGAAAGAAATGTTGGCTGGCACAGAAAAAGGA
CAAAAATGTTGTATTCGAGCAAAAATTGACATGTCATCACCAAATGGATGCCTTCGTGAT
CCAACAATTTATCGTTGCAAAAATGAACCACATCCACGTACTGGAACTAATTACAAAGTT
TATCCAACTTATGATTTTGCTTGTCCTATTGTTGATGCAATTGAAAATGTGACTCATACT
CTTCGTACAATGGAATATCACGATCGTGATGATCAATTTTATTGGTTTATTGATGCATTG
AAACTTCGTAAACCATACATTTGGGAATATTCACGTTTAAATATGACTAACACTGTTCTA
TCTAAACGTAAATTGACTTGGTTTGTTGAAAACGGTCTGGTTGATGGCTGGGATGATCCT
CGTTTTCCTACAGTTCGAG

>g17015.t6 Gene=g17015 Length=466
MPIKVICDLKNPPIGALVVAEIIKSTDPVVIEWSDKEASINFGNNSLSCVSNNDLLRALA
RQAGSYQLYGKTPIERTQIDHWLTYCLNYDAHIDEAIQYLNKCLAPLTYLVSNKLTIADL
AVFNEFFVKYDLLKKSGLPSHVQRWYNLISSLPTVQTVLSSLPKDGKSTKSKKQEKQEFS
AALGVGDRKQEGKFVDLPGAEMGKVVVRFPPEASGYLHIGHAKAALLNQYYQQAFDGKLI
MRFDDTNPAKENVHFEEVILEDVEMLQIKPDAFTYTSDYFDIMLKYCEQLMKEGKAYADD
TDPELMKQEREQKVESKNRNNSVEKNFEMWKEMLAGTEKGQKCCIRAKIDMSSPNGCLRD
PTIYRCKNEPHPRTGTNYKVYPTYDFACPIVDAIENVTHTLRTMEYHDRDDQFYWFIDAL
KLRKPYIWEYSRLNMTNTVLSKRKLTWFVENGLVDGWDDPRFPTVR

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g17015.t6 Coils Coil Coil 306 326 -
13 g17015.t6 Gene3D G3DSA:1.20.1050.130 - 1 170 8.3E-40
12 g17015.t6 Gene3D G3DSA:3.40.50.620 HUPs 174 466 3.0E-114
3 g17015.t6 PANTHER PTHR43382 PROLYL-TRNA SYNTHETASE 15 466 1.9E-219
6 g17015.t6 PRINTS PR00987 Glutamyl-tRNA synthetase signature 208 220 1.1E-17
5 g17015.t6 PRINTS PR00987 Glutamyl-tRNA synthetase signature 222 233 1.1E-17
8 g17015.t6 PRINTS PR00987 Glutamyl-tRNA synthetase signature 237 250 1.1E-17
4 g17015.t6 PRINTS PR00987 Glutamyl-tRNA synthetase signature 382 392 1.1E-17
7 g17015.t6 PRINTS PR00987 Glutamyl-tRNA synthetase signature 398 406 1.1E-17
2 g17015.t6 Pfam PF14497 Glutathione S-transferase, C-terminal domain 91 161 9.2E-5
1 g17015.t6 Pfam PF00749 tRNA synthetases class I (E and Q), catalytic domain 204 465 2.1E-106
11 g17015.t6 ProSitePatterns PS00178 Aminoacyl-transfer RNA synthetases class-I signature. 211 222 -
10 g17015.t6 SUPERFAMILY SSF47616 GST C-terminal domain-like 54 157 1.81E-16
9 g17015.t6 SUPERFAMILY SSF52374 Nucleotidylyl transferase 204 456 6.44E-76

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