General information for g10600.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Probable asparagine–tRNA ligase, mitochondrial.
Parent gene
- The parent gene g10600 is located on chr_1: 10602851..10603731 (- 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_1 | g10600 | g10600.t2 | TTS | g10600.t2 | 10602282 | 10602282 |
| chr_1 | g10600 | g10600.t2 | isoform | g10600.t2 | 10602851 | 10603731 |
| chr_1 | g10600 | g10600.t2 | exon | g10600.t2.exon1 | 10602851 | 10603268 |
| chr_1 | g10600 | g10600.t2 | cds | g10600.t2.CDS1 | 10602853 | 10603167 |
| chr_1 | g10600 | g10600.t2 | exon | g10600.t2.exon2 | 10603345 | 10603731 |
| chr_1 | g10600 | g10600.t2 | TSS | g10600.t2 | 10603908 | 10603908 |
Sequences
>g10600.t2 Gene=g10600 Length=805
ATGTTTATTAATCTTATCAAACGAAAAATTTCGACAGCAAGTTTAAGTGAAATTTTTAAG
AAATGTAATATTGATCAACAAATAAAAGTAAGAGGATGGGTAAAAACTACACGAATAATG
AAGGATGTAATATTCTGTGATATTAATGATGGTTCGACAGGACAAAATCTTCAACTTGTG
TGTAACAAAACTCAAAAATCTAAATTGATTTTTGGTTCTTCTATTGAAGCAAAAGGATTA
CTTTCACAAACACCAAAAGGACAACTAGAAGTAAAAGTAGATGAAATTAAAGTTATCGGA
GACTGTCCAACTCAAAATTATCCATATGTAGCTCGAACACTTTATTCCTCAGAATATATT
CGTGAAAATCTTCACTTCCGATCACGAGATTTATTCAAATTCATACACCAATTTTGACGT
CAAATGACTGTGAGGGTGCAGGAGAAGTTTTTATTGTAAAACCTGATAATGATGACTTAT
TGAAAATTATGAAAAAAAATAAGGATGATCCAAATGAAAAGGCTTATTTTGATCATAAGG
CATTTCTTACAGTTAGCGGTCAATTGCATTTAGAAGCAATGGCTCATGGTTTAACAAAAG
TTTACACATTCAATCCAGCATTTCGAGCAGAAAATTGTAAATCTGCAGTTCATTTGTCTG
AATTTTACATGTTAGAATTGGAAGAAAGTTTTATAGAATCACTCGATGATGTGATTGCAA
CAATTACCAAAATGTTTAAAAGTGTAACTAAAGAATTTTTAGATAAATCTATAGATGATG
TCAAAAGAATAAATAAAGATAATAT
>g10600.t2 Gene=g10600 Length=105
MKKNKDDPNEKAYFDHKAFLTVSGQLHLEAMAHGLTKVYTFNPAFRAENCKSAVHLSEFY
MLELEESFIESLDDVIATITKMFKSVTKEFLDKSIDDVKRINKDN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g10600.t2 | Gene3D | G3DSA:3.30.930.10 | Bira Bifunctional Protein; Domain 2 | 2 | 105 | 0 |
| 2 | g10600.t2 | PANTHER | PTHR22594:SF34 | ASPARAGINE–TRNA LIGASE, MITOCHONDRIAL-RELATED | 9 | 103 | 0 |
| 3 | g10600.t2 | PANTHER | PTHR22594 | ASPARTYL/LYSYL-TRNA SYNTHETASE | 9 | 103 | 0 |
| 1 | g10600.t2 | Pfam | PF00152 | tRNA synthetases class II (D, K and N) | 10 | 103 | 0 |
| 4 | g10600.t2 | SUPERFAMILY | SSF55681 | Class II aaRS and biotin synthetases | 7 | 102 | 0 |
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: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.
