General information for g2726.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Probable arginine–tRNA ligase, cytoplasmic.
Parent gene
- The parent gene g2726 is located on chr_3: 19903103..19911408 (+ 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_3 | g2726 | g2726.t1 | TSS | g2726.t1 | 19900887 | 19900887 |
| chr_3 | g2726 | g2726.t1 | isoform | g2726.t1 | 19900964 | 19903103 |
| chr_3 | g2726 | g2726.t1 | exon | g2726.t1.exon1 | 19900964 | 19901008 |
| chr_3 | g2726 | g2726.t1 | cds | g2726.t1.CDS1 | 19900964 | 19901008 |
| chr_3 | g2726 | g2726.t1 | exon | g2726.t1.exon2 | 19901080 | 19901214 |
| chr_3 | g2726 | g2726.t1 | cds | g2726.t1.CDS2 | 19901080 | 19901214 |
| chr_3 | g2726 | g2726.t1 | exon | g2726.t1.exon3 | 19901286 | 19903103 |
| chr_3 | g2726 | g2726.t1 | cds | g2726.t1.CDS3 | 19901286 | 19903103 |
| chr_3 | g2726 | g2726.t1 | TTS | g2726.t1 | 19903172 | 19903172 |
Sequences
>g2726.t1 Gene=g2726 Length=1998
ATGGAAGAACAAATAGCAAAAGAAAGTCATCGCTTATCATCAATTGAAGCAGAAATTGCT
CAAGTTGAAAATTCAATCAAAAATATAAAGGAAGGCAATTTTGGAGATGAAAGCGCAGAA
TTGAGCTCATTGTTGACCGAAAATAGTAAATTAAAATTCCGTTTGGAAATTCTTAATAAG
GCAATCGCAAATGAAAGAAAACAAATGAGTAGTTCATCAAATTCACCAACTGAAGTGATT
TCCATTATTAAACATCTTTATGACATTTTTTATAATACAACAAAAGCTATATTTCCTCAA
TTTGAAGATCCAATTTGTGTAATATCAAGTCAAACTAATAAGTCAGATTATCAATGCAAC
AGTGCTATGCCATTGAGTTCAAAGCTGAAGCAATTGAATGTGCAAATGTCATCATTAGAT
ATTGCAAAGAAACTTGTCGAAAATCTTCCATATTCGCCTCTTATTGAAAGAACTGAAATA
ACTGGACCTGGTTTCATCTCAATCTTTTTAACAAAGGATTATGCCAAGACATTTATCTCT
CTAATTTTGAATGAAGGTGTAAAACCACCGCCTATGAAAAAATTGCGAGTTGTTGTTGAT
TTCTCTTCACCGAATATTGCCAAGCAAATGCATGTAGGACATTTACGCTCGACTATCATC
GGAGATTCAATTTCGCGACTTCTTGAATTCTTAGGACATGATGTGTTGAGAATTAATCAT
TTAGGAGATTGGGGAACACAATTTGGAATGCTTATTGCTCATCTTGAAGACATTTTTCCC
AATTATGTCAATGAATCGCCACCAATTGCAGATTTGCAAGCATTCTATAAAGAGTCAAAA
AAACGTTTTGATGAAGACGAAGAGTTTAAGAAGCGTGCATATGATCGAGTTGTGAAATTA
CAATCAGGTGAAAAAAATTCTACTAAGGCATGGCAATTAATTTGTGATGTATCACGTCGT
GAATTTCAACATATTTATGATTTGCTTGATGTAAAAATAGTTGAACGTGGTGAATCGTTT
TATCAATCACGAATGGAGTCATTAGTTAAAGAACTAGATGAGCAAGGACTTTTAGAAGAA
GATGAAGGACGAAAAATTATGTGGGGTGAAAAAACTGAAGGTGAAATACCTTTGACTATT
GTTAAATCTGGCGGTGGTTTCACTTATGATACATCAGATATGGCGACTATTAAACAAAGA
ATTGAAGAAGAAAAGGCTGACTGGATAATTTATGTTACTGATGCCGGTCAAGCTACTCAT
TTTAAATCAATTTTTGCATGCGCAAAACGTGCTGGTATTTTAGATCCCTCAAAAATTCGT
ATTGATCACTTAGGTTTTGGCGTTGTACTTGGTGAAGATGGCAAAAAATTTAAAACTCGT
TCAGGTGATACTGTTAAACTTTCGGATTTACTTGAAGAGGGTACACGACGATCATTAGAA
AAACTTAAAGAAAAAGAAAGAGATAAGATTTTGAATGAACAAGAAATAATTGATGCTACC
AATAATGTTGCATATGGATGCATTAAATATGCTGATTTATCCAAGAGTTCTAGAAATGAC
TATGTTTTCAGTTTCGATCGAATGTTGGATGACCGAGGAAATACTGCCGTTTATTTATTG
TATGCATATGTTCGCATTTGCTCAATTGCACGCAATTTGGGAGAAGAATTTAATAAGCAG
ATGCCTAAACTAAAAAAAGAAACACCTATTGTACTTGACCATGAAAAGGAATGGAAATTA
GCAAAAGTTTTGATTCAATTTCCTGATATCATTGAGAAAATTTTGCGAGAATTGAATATT
CACTATTTGTGCGATTTTCTCTATCATATTGCCACTACATTTACAGAATTTTACGATTCT
TGCTATTGTATTCAAAAGAACAAGCAAGGAGAAGTTGTCAAAATTGATGTAAGTCGAGTG
CTCTTATGTGAAGCAACAGCAGCAATCATGGCTCAATGCTTCGATATCCTTGGCATTAAA
ACATTAAAGAAAGTTTAA
>g2726.t1 Gene=g2726 Length=665
MEEQIAKESHRLSSIEAEIAQVENSIKNIKEGNFGDESAELSSLLTENSKLKFRLEILNK
AIANERKQMSSSSNSPTEVISIIKHLYDIFYNTTKAIFPQFEDPICVISSQTNKSDYQCN
SAMPLSSKLKQLNVQMSSLDIAKKLVENLPYSPLIERTEITGPGFISIFLTKDYAKTFIS
LILNEGVKPPPMKKLRVVVDFSSPNIAKQMHVGHLRSTIIGDSISRLLEFLGHDVLRINH
LGDWGTQFGMLIAHLEDIFPNYVNESPPIADLQAFYKESKKRFDEDEEFKKRAYDRVVKL
QSGEKNSTKAWQLICDVSRREFQHIYDLLDVKIVERGESFYQSRMESLVKELDEQGLLEE
DEGRKIMWGEKTEGEIPLTIVKSGGGFTYDTSDMATIKQRIEEEKADWIIYVTDAGQATH
FKSIFACAKRAGILDPSKIRIDHLGFGVVLGEDGKKFKTRSGDTVKLSDLLEEGTRRSLE
KLKEKERDKILNEQEIIDATNNVAYGCIKYADLSKSSRNDYVFSFDRMLDDRGNTAVYLL
YAYVRICSIARNLGEEFNKQMPKLKKETPIVLDHEKEWKLAKVLIQFPDIIEKILRELNI
HYLCDFLYHIATTFTEFYDSCYCIQKNKQGEVVKIDVSRVLLCEATAAIMAQCFDILGIK
TLKKV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 18 | g2726.t1 | CDD | cd00671 | ArgRS_core | 196 | 462 | 1.32863E-79 |
| 16 | g2726.t1 | Coils | Coil | Coil | 5 | 32 | - |
| 17 | g2726.t1 | Coils | Coil | Coil | 48 | 68 | - |
| 15 | g2726.t1 | Gene3D | G3DSA:3.30.1360.70 | - | 78 | 186 | 3.8E-16 |
| 13 | g2726.t1 | Gene3D | G3DSA:3.40.50.620 | HUPs | 195 | 537 | 3.6E-111 |
| 14 | g2726.t1 | Gene3D | G3DSA:1.10.730.10 | - | 538 | 665 | 2.0E-27 |
| 5 | g2726.t1 | Hamap | MF_00123 | Arginine–tRNA ligase [argS]. | 84 | 665 | 23.410683 |
| 4 | g2726.t1 | PANTHER | PTHR11956 | ARGINYL-TRNA SYNTHETASE | 83 | 664 | 4.4E-224 |
| 8 | g2726.t1 | PRINTS | PR01038 | Arginyl-tRNA synthetase signature | 196 | 211 | 8.4E-26 |
| 6 | g2726.t1 | PRINTS | PR01038 | Arginyl-tRNA synthetase signature | 211 | 227 | 8.4E-26 |
| 7 | g2726.t1 | PRINTS | PR01038 | Arginyl-tRNA synthetase signature | 235 | 248 | 8.4E-26 |
| 9 | g2726.t1 | PRINTS | PR01038 | Arginyl-tRNA synthetase signature | 379 | 400 | 8.4E-26 |
| 2 | g2726.t1 | Pfam | PF03485 | Arginyl tRNA synthetase N terminal domain | 90 | 170 | 2.2E-14 |
| 3 | g2726.t1 | Pfam | PF00750 | tRNA synthetases class I (R) | 190 | 525 | 6.2E-138 |
| 1 | g2726.t1 | Pfam | PF05746 | DALR anticodon binding domain | 539 | 664 | 4.0E-29 |
| 21 | g2726.t1 | ProSitePatterns | PS00178 | Aminoacyl-transfer RNA synthetases class-I signature. | 204 | 215 | - |
| 20 | g2726.t1 | SMART | SM01016 | Arg_tRNA_synt_N_2 | 84 | 170 | 2.9E-15 |
| 19 | g2726.t1 | SMART | SM00836 | dalr_1_4 | 539 | 665 | 5.0E-34 |
| 12 | g2726.t1 | SUPERFAMILY | SSF55190 | Arginyl-tRNA synthetase (ArgRS), N-terminal ‘additional’ domain | 73 | 186 | 9.94E-14 |
| 10 | g2726.t1 | SUPERFAMILY | SSF52374 | Nucleotidylyl transferase | 190 | 533 | 3.94E-88 |
| 11 | g2726.t1 | SUPERFAMILY | SSF47323 | Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases | 533 | 664 | 5.36E-31 |
| 22 | g2726.t1 | TIGRFAM | TIGR00456 | argS: arginine–tRNA ligase | 92 | 664 | 2.9E-136 |
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:0004814 | arginine-tRNA ligase activity | MF |
| GO:0005524 | ATP binding | MF |
| GO:0006418 | tRNA aminoacylation for protein translation | BP |
| GO:0000166 | nucleotide binding | MF |
| GO:0004812 | aminoacyl-tRNA ligase activity | MF |
| GO:0006420 | arginyl-tRNA aminoacylation | BP |
| GO:0005737 | cytoplasm | CC |
KEGG
Orthology
- This transcript has been annotated with K01887 (arginyl-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.
