General information for g6507.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Alanine–tRNA ligase, mitochondrial.
Parent gene
- The parent gene g6507 is located on chr_2: 17327170..17337520 (- 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_2 | g6507 | g6507.t3 | isoform | g6507.t3 | 17326099 | 17327170 |
| chr_2 | g6507 | g6507.t3 | exon | g6507.t3.exon1 | 17326099 | 17326898 |
| chr_2 | g6507 | g6507.t3 | cds | g6507.t3.CDS1 | 17326101 | 17326898 |
| chr_2 | g6507 | g6507.t3 | exon | g6507.t3.exon2 | 17326958 | 17327170 |
| chr_2 | g6507 | g6507.t3 | cds | g6507.t3.CDS2 | 17326958 | 17327170 |
| chr_2 | g6507 | g6507.t3 | TSS | g6507.t3 | NA | NA |
| chr_2 | g6507 | g6507.t3 | TTS | g6507.t3 | NA | NA |
Sequences
>g6507.t3 Gene=g6507 Length=1013
ATGATACTTAACAAAAATATTTTACTAAATACAACAAGATTAAAAGTGATAACATGCAGA
AATTATTCAACAAAATATCGATCATCAAAAGTCATACGACAGCAATTTCTTGACTATTTT
GTTAAAGATAATGATCATAATTTTGTTCGAAGTTCATCAGTAATTCCATTTTGTGATCCT
ACATTATCGTTTACGAATGCTGGAATGAATCAATTTAAGAATATATTTCTTGGAAATCAA
CAACCGAAATATACTCGAGTAGCAAATACACAAAAATGCATTAGAGTAGGAGGTAAACAT
AATGATCTCTCAGTTGTTGGAACAGATGGCTATCATCACACTTTCTTTGAAATGCTTGGA
AATTGGTCATTTGGTGATTACTTTAAGAAAGAAGCATGTGAAATGGCTTGGAATTTACTA
ACAAAAGTCTATGAAATTCCACCTGAGCGACTTTATGTAACTTATTTTAAAGGCGATCAA
ACATTAGGTTTAAAACCTGATATTGAATGTCGAGATATTTGGCTTGAAATTGGTGTACCA
ATTAATCGAATTGTGGCATGTGATGCAAAAGATAATTTTTGGGAAATGGGAAAAACAGGC
CCTTGTGGAGGATGCACTGAAATTCATGTTGATCACTTACCAAGCTATAGAAAAGTCAAT
AGAGCTAAGGATGTTAACAAGGATAAGCATGATTTAACTGAACTCTGGAATATTGTATTC
ATTGAAAACTTTAGGAAAAGTGATGGCACAATTGAGCATTTACAACAAAAACATGTTGAT
ACTGGCATGGGTTTTGAAAGACTTGTTGCCTTTCTTCAAGATAAGAGAAGTAACTATGAT
ACCGATCTTTTTATACCTCTTTTTGAGAAAATTCAGAGAATTACAAGAAAGCCTCCTTAT
CTCGGATCATTTAGTGGTGATGATTTTAAACGTGACATGTCTTATCGAGTTATTGCTGAC
CATAGCAGAATGATTGCAATTGCTTTAGCTGATGGAATGTTTCCAGAAGAAAA
>g6507.t3 Gene=g6507 Length=337
MILNKNILLNTTRLKVITCRNYSTKYRSSKVIRQQFLDYFVKDNDHNFVRSSSVIPFCDP
TLSFTNAGMNQFKNIFLGNQQPKYTRVANTQKCIRVGGKHNDLSVVGTDGYHHTFFEMLG
NWSFGDYFKKEACEMAWNLLTKVYEIPPERLYVTYFKGDQTLGLKPDIECRDIWLEIGVP
INRIVACDAKDNFWEMGKTGPCGGCTEIHVDHLPSYRKVNRAKDVNKDKHDLTELWNIVF
IENFRKSDGTIEHLQQKHVDTGMGFERLVAFLQDKRSNYDTDLFIPLFEKIQRITRKPPY
LGSFSGDDFKRDMSYRVIADHSRMIAIALADGMFPEE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g6507.t3 | CDD | cd00673 | AlaRS_core | 32 | 275 | 0.000 |
| 10 | g6507.t3 | Gene3D | G3DSA:3.30.930.10 | Bira Bifunctional Protein; Domain 2 | 27 | 276 | 0.000 |
| 2 | g6507.t3 | PANTHER | PTHR11777:SF8 | ALANINE–TRNA LIGASE, MITOCHONDRIAL | 17 | 336 | 0.000 |
| 3 | g6507.t3 | PANTHER | PTHR11777 | ALANYL-TRNA SYNTHETASE | 17 | 336 | 0.000 |
| 6 | g6507.t3 | PRINTS | PR00980 | Alanyl-tRNA synthetase signature | 101 | 112 | 0.000 |
| 7 | g6507.t3 | PRINTS | PR00980 | Alanyl-tRNA synthetase signature | 233 | 244 | 0.000 |
| 5 | g6507.t3 | PRINTS | PR00980 | Alanyl-tRNA synthetase signature | 260 | 273 | 0.000 |
| 4 | g6507.t3 | PRINTS | PR00980 | Alanyl-tRNA synthetase signature | 316 | 332 | 0.000 |
| 1 | g6507.t3 | Pfam | PF01411 | tRNA synthetases class II (A) | 32 | 336 | 0.000 |
| 11 | g6507.t3 | ProSiteProfiles | PS50860 | Alanyl-transfer RNA synthetases family profile. | 27 | 337 | 54.761 |
| 8 | g6507.t3 | SUPERFAMILY | SSF55681 | Class II aaRS and biotin synthetases | 29 | 279 | 0.000 |
| 9 | g6507.t3 | SUPERFAMILY | SSF101353 | Putative anticodon-binding domain of alanyl-tRNA synthetase (AlaRS) | 280 | 336 | 0.000 |
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:0000166 | nucleotide binding | MF |
| GO:0006419 | alanyl-tRNA aminoacylation | BP |
| GO:0005737 | cytoplasm | CC |
| GO:0004813 | alanine-tRNA ligase activity | MF |
| GO:0003676 | nucleic acid binding | 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.
