General information for g1122.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Aspartate–tRNA ligase, cytoplasmic.
Parent gene
- The parent gene g1122 is located on chr_3: 8323149..8330315 (- 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 | g1122 | g1122.t2 | TTS | g1122.t2 | 8320377 | 8320377 |
| chr_3 | g1122 | g1122.t2 | isoform | g1122.t2 | 8320520 | 8322191 |
| chr_3 | g1122 | g1122.t2 | exon | g1122.t2.exon1 | 8320520 | 8320683 |
| chr_3 | g1122 | g1122.t2 | cds | g1122.t2.CDS1 | 8320520 | 8320683 |
| chr_3 | g1122 | g1122.t2 | exon | g1122.t2.exon2 | 8320744 | 8321126 |
| chr_3 | g1122 | g1122.t2 | cds | g1122.t2.CDS2 | 8320744 | 8321126 |
| chr_3 | g1122 | g1122.t2 | exon | g1122.t2.exon3 | 8321189 | 8321830 |
| chr_3 | g1122 | g1122.t2 | cds | g1122.t2.CDS3 | 8321189 | 8321830 |
| chr_3 | g1122 | g1122.t2 | exon | g1122.t2.exon4 | 8321892 | 8322191 |
| chr_3 | g1122 | g1122.t2 | cds | g1122.t2.CDS4 | 8321892 | 8321911 |
| chr_3 | g1122 | g1122.t2 | TSS | g1122.t2 | 8322807 | 8322807 |
Sequences
>g1122.t2 Gene=g1122 Length=1489
GAAACAAAAAGAGAATGTTGAAGAAGCAGTTGGTGAAGATTATTCAAAAGATAAATATGG
ACAGTCTAAATTGATTCAATCAGGAGAAAAGCATCTGGAACGAAATTTCGTACCTGTAGA
TCAATTAAGTAAAGCAGCAGAAAAAGGCTCAAAAACTGTGTGGGTTCGCGGACGTATACA
TACATCTCGATGTAAAGGAAAACAATGTTTTATCGTATTACGTCAGCAATCAAGTACTGT
GCAAGTGCTTATTTCTGTTAATGACGTCATTTCGAAGCAAATGGTTAAATTCTCTGGATC
AATTGCCCGTGAGAGTATCGTTGATATTCATGCGAATATCGTCAAAGTTGAACAAAAAAT
AGAATCATGTACAGAACAAAATTTGGAACTGCATGGTTTAGAAATTTACGTTGTTTCACC
AGCAAAACCGCAACTGCCACTTCAAATTGAAGATGCTTCGCGTCCAGAAAAGAATGATGA
CCCAGACAGTCTTAAAATTCGTGTTAATCAAGATACTCGCTTAGATAATCGTGTATTAGA
TTTACGTACTCCAGCGAATCAGGCTATTTTCAGATTAGAAGCTGGCGTTTGTAAACTCTT
TCGCGACATTCTGAGTAAAAAAGGTTTTGTTGAGATCCACACACCTAAAATCATTTCAGC
TGCGAGTGAAGGAGGAGCAAATGTTTTTACAGTTAGCTATTTTAAAGAATCAGCATACCT
TGCACAATCACCACAATTGTACAAGCAAATGGCTATTGCAGCTGACTTTGATCGAGTTTT
TACGGTTGGAGCAGTTTTTCGAGCAGAAGACTCCAACACACATCGACATTTGACTGAATT
CGTTGGCTTAGATTTAGAAATGGCCTTCAAATATCATTACCATGAAGTGCTGGACACAAT
TGCAAATACATTTACTGAAATGTTTAAAGGCTTGCGTGATAATTACGCTAATGAAATTGC
TGCCGTTGGAAATCAATATAATGTTGAACCATTCAAGTTTTTGGAACCTCCATTGAGATT
AGAGTTTCATCAAGGAGTTCAAATGTTACGTGAAGCTGGCATAGAAACTGGTGATGAAGA
GGATTTGTCTACACCGAATGAAAAATTACTTGGTCGTTTGGTGAAAGCAAAATACGATAC
AGATTTTTATATTTTGGATAAATTTCCATTGGCTATTCGACCATTTTATACAATGCCAGA
TCCCAATAATCCTAAATATTCCAATTCATATGATATGTTTATGCGTGGCGAAGAAATTTT
GTCCGGTGCCCAGCGTATTCATGACCCTGATTATCTTGTTGAGCGTGCGAAACATCACGA
AATCGATATTTCAAAAATTGCTGCATACATAGAAGCTTTTCGATTCGGTTGTCCACCACA
TGCAGGCGGTGGTATTGGCATGGAACGTGTCGTGATGCTCTATCTTGGATTGGATAATAT
TAGAAAGACTTCAATGTTCCCTCGCGATCCAAAACGATTGACGCCTTAA
>g1122.t2 Gene=g1122 Length=402
MVKFSGSIARESIVDIHANIVKVEQKIESCTEQNLELHGLEIYVVSPAKPQLPLQIEDAS
RPEKNDDPDSLKIRVNQDTRLDNRVLDLRTPANQAIFRLEAGVCKLFRDILSKKGFVEIH
TPKIISAASEGGANVFTVSYFKESAYLAQSPQLYKQMAIAADFDRVFTVGAVFRAEDSNT
HRHLTEFVGLDLEMAFKYHYHEVLDTIANTFTEMFKGLRDNYANEIAAVGNQYNVEPFKF
LEPPLRLEFHQGVQMLREAGIETGDEEDLSTPNEKLLGRLVKAKYDTDFYILDKFPLAIR
PFYTMPDPNNPKYSNSYDMFMRGEEILSGAQRIHDPDYLVERAKHHEIDISKIAAYIEAF
RFGCPPHAGGGIGMERVVMLYLGLDNIRKTSMFPRDPKRLTP
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g1122.t2 | CDD | cd00776 | AsxRS_core | 74 | 398 | 0.000000 |
| 11 | g1122.t2 | Gene3D | G3DSA:2.40.50.140 | - | 1 | 52 | 0.000000 |
| 10 | g1122.t2 | Gene3D | G3DSA:3.30.930.10 | Bira Bifunctional Protein; Domain 2 | 53 | 402 | 0.000000 |
| 3 | g1122.t2 | Hamap | MF_02075 | Aspartate–tRNA(Asp) ligase [aspS]. | 1 | 402 | 36.984898 |
| 2 | g1122.t2 | PANTHER | PTHR43450 | ASPARTYL-TRNA SYNTHETASE | 1 | 402 | 0.000000 |
| 4 | g1122.t2 | PRINTS | PR01042 | Aspartyl-tRNA synthetase signature | 147 | 159 | 0.000000 |
| 7 | g1122.t2 | PRINTS | PR01042 | Aspartyl-tRNA synthetase signature | 164 | 177 | 0.000000 |
| 6 | g1122.t2 | PRINTS | PR01042 | Aspartyl-tRNA synthetase signature | 317 | 333 | 0.000000 |
| 5 | g1122.t2 | PRINTS | PR01042 | Aspartyl-tRNA synthetase signature | 357 | 371 | 0.000000 |
| 1 | g1122.t2 | Pfam | PF00152 | tRNA synthetases class II (D, K and N) | 77 | 396 | 0.000000 |
| 14 | g1122.t2 | ProSiteProfiles | PS50862 | Aminoacyl-transfer RNA synthetases class-II family profile. | 97 | 402 | 21.890000 |
| 9 | g1122.t2 | SUPERFAMILY | SSF50249 | Nucleic acid-binding proteins | 1 | 52 | 0.000006 |
| 8 | g1122.t2 | SUPERFAMILY | SSF55681 | Class II aaRS and biotin synthetases | 72 | 401 | 0.000000 |
| 13 | g1122.t2 | TIGRFAM | TIGR00458 | aspS_nondisc: aspartate–tRNA(Asn) ligase | 1 | 402 | 0.000000 |
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:0006422 | aspartyl-tRNA aminoacylation | BP |
| GO:0005524 | ATP binding | MF |
| GO:0006418 | tRNA aminoacylation for protein translation | BP |
| GO:0000166 | nucleotide binding | MF |
| GO:0004815 | aspartate-tRNA ligase activity | MF |
| GO:0004812 | aminoacyl-tRNA ligase activity | MF |
| GO:0005737 | cytoplasm | CC |
KEGG
Orthology
- This transcript has been annotated with K09759 (nondiscriminating aspartyl-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.
