General information for g17015.t10
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 g17015 is located on chr_4: 12162767..12163690 (+ 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_4 | g17015 | g17015.t10 | TSS | g17015.t10 | 12156272 | 12156272 |
| chr_4 | g17015 | g17015.t10 | isoform | g17015.t10 | 12156363 | 12162767 |
| chr_4 | g17015 | g17015.t10 | exon | g17015.t10.exon1 | 12156363 | 12156405 |
| chr_4 | g17015 | g17015.t10 | cds | g17015.t10.CDS1 | 12156363 | 12156405 |
| chr_4 | g17015 | g17015.t10 | exon | g17015.t10.exon2 | 12156511 | 12157603 |
| chr_4 | g17015 | g17015.t10 | cds | g17015.t10.CDS2 | 12156511 | 12157603 |
| chr_4 | g17015 | g17015.t10 | exon | g17015.t10.exon3 | 12157660 | 12157922 |
| chr_4 | g17015 | g17015.t10 | cds | g17015.t10.CDS3 | 12157660 | 12157922 |
| chr_4 | g17015 | g17015.t10 | exon | g17015.t10.exon4 | 12160076 | 12160759 |
| chr_4 | g17015 | g17015.t10 | cds | g17015.t10.CDS4 | 12160076 | 12160759 |
| chr_4 | g17015 | g17015.t10 | exon | g17015.t10.exon5 | 12161198 | 12162539 |
| chr_4 | g17015 | g17015.t10 | cds | g17015.t10.CDS5 | 12161198 | 12161217 |
| chr_4 | g17015 | g17015.t10 | exon | g17015.t10.exon6 | 12162599 | 12162767 |
| chr_4 | g17015 | g17015.t10 | TTS | g17015.t10 | 12163773 | 12163773 |
Sequences
>g17015.t10 Gene=g17015 Length=3594
ATGCCAATCAAAGTAATTTGTGATTTAAAGAATCCACCAATTGGTGCTTTGGTTGTTGCC
GAAATTATTAAATCAACTGATCCAGTTGTAATTGAATGGAGCGATAAAGAAGCATCTATC
AATTTTGGTAACAATTCACTTTCATGTGTGAGCAACAACGACCTTTTAAGAGCTCTAGCT
CGACAAGCCGGAAGTTATCAGCTTTATGGAAAAACTCCGATTGAAAGAACTCAAATTGAT
CATTGGTTGACTTACTGCCTCAATTATGATGCTCATATTGATGAAGCAATTCAATATTTG
AATAAATGTTTAGCTCCATTGACTTATTTAGTGTCAAATAAGCTGACAATTGCTGATTTA
GCTGTGTTCAATGAATTTTTTGTCAAGTATGATCTTTTGAAGAAATCTGGTTTGCCTAGT
CATGTTCAACGCTGGTATAACCTCATCAGTTCATTGCCAACAGTTCAAACTGTGCTTTCA
TCACTTCCAAAAGATGGTAAATCTACAAAATCAAAGAAACAAGAAAAACAAGAATTTTCA
GCAGCTCTTGGTGTTGGCGATAGAAAGCAAGAAGGAAAATTTGTCGATCTTCCAGGAGCT
GAAATGGGAAAAGTTGTTGTTCGCTTTCCTCCTGAAGCATCAGGGTATTTGCACATTGGT
CATGCTAAAGCAGCTCTTTTAAATCAATATTATCAGCAAGCATTTGATGGAAAATTGATT
ATGAGATTTGATGACACCAATCCAGCTAAAGAAAATGTTCATTTTGAGGAAGTCATTTTG
GAAGATGTAGAAATGCTTCAAATTAAACCTGATGCATTCACTTACACCTCAGATTATTTT
GATATCATGCTTAAATATTGTGAGCAATTAATGAAAGAAGGAAAAGCATATGCTGATGAT
ACTGATCCTGAATTGATGAAACAAGAACGTGAACAGAAAGTTGAGTCAAAGAACCGAAAT
AATTCGGTTGAAAAGAATTTTGAAATGTGGAAAGAAATGTTGGCTGGCACAGAAAAAGGA
CAAAAATGTTGTATTCGAGCAAAAATTGACATGTCATCACCAAATGGATGCCTTCGTGAT
CCAACAATTTATCGTTGCAAAAATGAACCACATCCACGTACTGGAACTAATTACAAAGTT
TATCCAACTTATGATTTTGCTTGTCCTATTGTTGATGCAATTGAAAATGTGACTCATACT
CTTCGTACAATGGAATATCACGATCGTGATGATCAATTTTATTGGTTTATTGATGCATTG
AAACTTCGTAAACCATACATTTGGGAATATTCACGTTTAAATATGACTAACACTGTTCTA
TCTAAACGTAAATTGACTTGGTTTGTTGAAAACGGTCTGGTTGATGGCTGGGATGATCCT
CGTTTTCCTACAGTTCGAGGTGTTTTACGTCGTGGTATGACTGTTGAAGGTCTAAAACAA
TTCATTATTGCACAAGGTTCTAGTAAAGCTGTAGTATTTATGGAATGGGATAAAATTTGG
GCTTTCAATAAGAAAGTCATTGATCCAATTGCACCTAGATATACAGCATTAGAAAATGAC
AATCGTATTATTGTTAAAGTCGCTAATGCAAAATTGCAAGCACTTGAAGTTCCAAAACAT
CCCAAAAATGAGGAAGTTGGCACAAAAACTATTTGGGTTGGTCCAGAAATTTATATTGAC
TATGCTGATGCTGAATGTTTAAAAGAAGGTGAAAATGCGACATTTATAAATTGGGGTAAT
TTGAGAATCAAGAAAATTCATAAAGAAGGAGAAAAAATTACTTCAGTCGATGCTGAATTG
AATTTGGGTGACACTGATTTCAAAAAGACGTTAAAACTTACATGGCTTTGTAAACAAGAT
CCATCAGAATATCCACCAACTTATTGTGTTTATTTTGATCATATTATAAACAAATCTGTT
CTTGGTAAAGATGAAGACTTTAAATCATACATCGGACATGAGACTAGAAAAGAAACAAAA
ATGTTTGGTGATCCTGAATTGAAAAAATGTCAAAAAGGCGACATCATTCAACTACAACGA
CGTGGATTTTTCAAAGTTGATCAAGCTTATGCTCCAGCTAGTGTGACATTAATGAAAAAA
TAAACAAACAAGGTGACGTTGTAAGAAATTTGAAGAGCCAAAAGGCAGCAAAGCAAGACA
TTGACGCAGCAGTAAAAATTCTATTGGAATTAAAAGCAGAATATAAAACAGCAACTGGTC
AAGATTGGAAACCAGGTGCTACTCCTGTTAAAACTGAAACAAAATCTACTCCATCAATCG
GGCAAGTCAGTGACATTAACGAAAAAATTGTTCAGCAAGGCGACATTGTCAGAAATTTGA
AGAGCCAAAAGGCAGCAAAGCAAGACATTGACGCAGCAGTGAAAATTCTGTTAGAATTAA
AAGCAGAATATAAAACAGCAACTGGTCAAGATTGGAAACCAGGTGCTACTCCTGTTAAAA
CTGAAACAAAAGCTGCTCCATCAGTTGGACAAGTCAGTGACATCAATGAAAAAATTGTTC
AGCAAGGCGACATTGTAAGAAATTTGAAGAGCCAAAAGGCAGCAAAGCAAGACATTGACG
CAGCAGTAAAAATTCTATTGGAATTAAAAGCAGAATATAAGAAAGTGACAGGAAAAGATT
GGAAACCAGAAACTAATCAAAATAAAGAAAACATGGTTCCACCAACCGAAAAGCCTTCTG
ATTCAAAGAAAGATGAACTCACGAAGAAAATCAATGATCAAGGAAATATTGTCCGTTCAT
TGAAATCAAATAAAGCAACTCCAAAAACTGAAATTGATGGAGCTGTTCAAGTTCTTTTAT
CGCTTAAAGCTGAATATAAAGAATTGACTGGTGAAGATTTTCCAGTTGCTGGACGACAAC
AACAACCAGCTAAAGAAAAAACAGCAAAACCAACCGAAAAGGCAACAAAACCAACCGAAA
AGAAGCAAGAACCGAAAAAAGTTGCAGTTGAATCAAAAGATGAAAGCTCAGGATTGAAGA
AGCAAACTCGATTAGGTTTGGAAGCGAAAAAGGAAGAAAATTTGCCTGATTGGTATTCAC
AAGTAATCACAAAGGGCGAAATGATTGAATATTACGATGTATCTGGATGTTATATTCTTC
GTCCATGGGCATTTGCAATTTGGAAAAATATCAAGAAATTTTTCGATGCAAAAATTACTG
ACATGGGAGTAAAAGAATGCTATTTTCCAATGTTTGTTTCAAAAGCTGCTTTGGAAAAAG
AGAAAGATCATATTGCAGATTTTGCACCAGAAGTTGCTTGGGTAACAAAATCAGGTGAAT
CAGATTTAGCTGAACCAATTGCTGTTCGTCCAACATCAGAAACTGTCATGTATCCAGCAT
ATGCCAAATGGGTTCAATCATATCGTGATTTGCCAATTCGTTTAAATCAATGGAACAATG
TTGTTCGTTGGGAATTTAAACATCCACAACCATTTTTAAGAACTCGTGAATTTTTATGGC
AAGAAGGTCATACTGCATTTGCAACATCAAAAGAAGCTCAAGAAGAAGTTTATGAAATTC
TTGAATTGTACAAACAAATTTATACAGATTTGCTGGCAATTCCAGTTGTAAAAG
>g17015.t10 Gene=g17015 Length=700
MPIKVICDLKNPPIGALVVAEIIKSTDPVVIEWSDKEASINFGNNSLSCVSNNDLLRALA
RQAGSYQLYGKTPIERTQIDHWLTYCLNYDAHIDEAIQYLNKCLAPLTYLVSNKLTIADL
AVFNEFFVKYDLLKKSGLPSHVQRWYNLISSLPTVQTVLSSLPKDGKSTKSKKQEKQEFS
AALGVGDRKQEGKFVDLPGAEMGKVVVRFPPEASGYLHIGHAKAALLNQYYQQAFDGKLI
MRFDDTNPAKENVHFEEVILEDVEMLQIKPDAFTYTSDYFDIMLKYCEQLMKEGKAYADD
TDPELMKQEREQKVESKNRNNSVEKNFEMWKEMLAGTEKGQKCCIRAKIDMSSPNGCLRD
PTIYRCKNEPHPRTGTNYKVYPTYDFACPIVDAIENVTHTLRTMEYHDRDDQFYWFIDAL
KLRKPYIWEYSRLNMTNTVLSKRKLTWFVENGLVDGWDDPRFPTVRGVLRRGMTVEGLKQ
FIIAQGSSKAVVFMEWDKIWAFNKKVIDPIAPRYTALENDNRIIVKVANAKLQALEVPKH
PKNEEVGTKTIWVGPEIYIDYADAECLKEGENATFINWGNLRIKKIHKEGEKITSVDAEL
NLGDTDFKKTLKLTWLCKQDPSEYPPTYCVYFDHIINKSVLGKDEDFKSYIGHETRKETK
MFGDPELKKCQKGDIIQLQRRGFFKVDQAYAPASVTLMKK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 19 | g17015.t10 | CDD | cd00807 | GlnRS_core | 204 | 513 | 3.98485E-141 |
| 18 | g17015.t10 | Coils | Coil | Coil | 306 | 326 | - |
| 17 | g17015.t10 | Gene3D | G3DSA:1.20.1050.130 | - | 1 | 170 | 1.8E-39 |
| 14 | g17015.t10 | Gene3D | G3DSA:3.40.50.620 | HUPs | 177 | 513 | 3.9E-131 |
| 16 | g17015.t10 | Gene3D | G3DSA:2.40.240.10 | Ribosomal Protein L25; Chain P | 514 | 690 | 4.4E-23 |
| 15 | g17015.t10 | Gene3D | G3DSA:2.40.240.10 | Ribosomal Protein L25; Chain P | 519 | 621 | 4.4E-23 |
| 5 | g17015.t10 | Hamap | MF_02076 | Glutamate–tRNA ligase [gltX]. | 106 | 699 | 31.866982 |
| 4 | g17015.t10 | PANTHER | PTHR43382 | PROLYL-TRNA SYNTHETASE | 15 | 695 | 0.0 |
| 8 | g17015.t10 | PRINTS | PR00987 | Glutamyl-tRNA synthetase signature | 208 | 220 | 6.8E-17 |
| 7 | g17015.t10 | PRINTS | PR00987 | Glutamyl-tRNA synthetase signature | 222 | 233 | 6.8E-17 |
| 10 | g17015.t10 | PRINTS | PR00987 | Glutamyl-tRNA synthetase signature | 237 | 250 | 6.8E-17 |
| 6 | g17015.t10 | PRINTS | PR00987 | Glutamyl-tRNA synthetase signature | 382 | 392 | 6.8E-17 |
| 9 | g17015.t10 | PRINTS | PR00987 | Glutamyl-tRNA synthetase signature | 398 | 406 | 6.8E-17 |
| 2 | g17015.t10 | Pfam | PF14497 | Glutathione S-transferase, C-terminal domain | 91 | 161 | 1.6E-4 |
| 1 | g17015.t10 | Pfam | PF00749 | tRNA synthetases class I (E and Q), catalytic domain | 204 | 508 | 6.8E-119 |
| 3 | g17015.t10 | Pfam | PF03950 | tRNA synthetases class I (E and Q), anti-codon binding domain | 511 | 687 | 9.2E-32 |
| 20 | g17015.t10 | ProSitePatterns | PS00178 | Aminoacyl-transfer RNA synthetases class-I signature. | 211 | 222 | - |
| 13 | g17015.t10 | SUPERFAMILY | SSF47616 | GST C-terminal domain-like | 54 | 157 | 3.48E-16 |
| 11 | g17015.t10 | SUPERFAMILY | SSF52374 | Nucleotidylyl transferase | 204 | 516 | 1.29E-85 |
| 12 | g17015.t10 | SUPERFAMILY | SSF50715 | Ribosomal protein L25-like | 511 | 691 | 6.8E-43 |
| 21 | g17015.t10 | TIGRFAM | TIGR00463 | gltX_arch: glutamate–tRNA ligase | 168 | 693 | 2.4E-154 |
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
- This transcript has been annotated with K01885 (glutamyl-tRNA synthetase)
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