General information for g1122.t1
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.t1 | TTS | g1122.t1 | 8320377 | 8320377 |
| chr_3 | g1122 | g1122.t1 | isoform | g1122.t1 | 8320520 | 8323150 |
| chr_3 | g1122 | g1122.t1 | exon | g1122.t1.exon1 | 8320520 | 8320683 |
| chr_3 | g1122 | g1122.t1 | cds | g1122.t1.CDS1 | 8320520 | 8320683 |
| chr_3 | g1122 | g1122.t1 | exon | g1122.t1.exon2 | 8320744 | 8321126 |
| chr_3 | g1122 | g1122.t1 | cds | g1122.t1.CDS2 | 8320744 | 8321126 |
| chr_3 | g1122 | g1122.t1 | exon | g1122.t1.exon3 | 8321189 | 8321830 |
| chr_3 | g1122 | g1122.t1 | cds | g1122.t1.CDS3 | 8321189 | 8321830 |
| chr_3 | g1122 | g1122.t1 | exon | g1122.t1.exon4 | 8321892 | 8322217 |
| chr_3 | g1122 | g1122.t1 | cds | g1122.t1.CDS4 | 8321892 | 8322217 |
| chr_3 | g1122 | g1122.t1 | exon | g1122.t1.exon5 | 8322282 | 8322376 |
| chr_3 | g1122 | g1122.t1 | cds | g1122.t1.CDS5 | 8322282 | 8322376 |
| chr_3 | g1122 | g1122.t1 | exon | g1122.t1.exon6 | 8322686 | 8322707 |
| chr_3 | g1122 | g1122.t1 | cds | g1122.t1.CDS6 | 8322686 | 8322707 |
| chr_3 | g1122 | g1122.t1 | exon | g1122.t1.exon7 | 8323052 | 8323150 |
| chr_3 | g1122 | g1122.t1 | cds | g1122.t1.CDS7 | 8323052 | 8323150 |
| chr_3 | g1122 | g1122.t1 | TSS | g1122.t1 | NA | NA |
Sequences
>g1122.t1 Gene=g1122 Length=1731
ATGCAGCTAATTAAATGCAAATATTTACTAAGATTTTCAATGAAATTATTATTTTCTGAT
GCAAAAGCTGAGTTGTCATTTAATCTTTGTAAAAAAATTACAAAAGTCTATAATAGTGCA
ACTATGGTAACAGAAGAATCAACAATAAACAACAATGAAGGCCAGTCAAAAAATGCAGCA
AAAAAGCTAGCCGCAAAAGCAGAAAAGGCAGCAAAGCGTGCCGAAAAAACTGCAGCAGAA
AAGAAACAAAAAGAGAATGTTGAAGAAGCAGTTGGTGAAGATTATTCAAAAGATAAATAT
GGACAGTCTAAATTGATTCAATCAGGAGAAAAGCATCTGGAACGAAATTTCGTACCTGTA
GATCAATTAAGTAAAGCAGCAGAAAAAGGCTCAAAAACTGTGTGGGTTCGCGGACGTATA
CATACATCTCGATGTAAAGGAAAACAATGTTTTATCGTATTACGTCAGCAATCAAGTACT
GTGCAAGTGCTTATTTCTGTTAATGACGTCATTTCGAAGCAAATGGTTAAATTCTCTGGA
TCAATTGCCCGTGAGAGTATCGTTGATATTCATGCGAATATCGTCAAAGTTGAACAAAAA
ATAGAATCATGTACAGAACAAAATTTGGAACTGCATGGTTTAGAAATTTACGTTGTTTCA
CCAGCAAAACCGCAACTGCCACTTCAAATTGAAGATGCTTCGCGTCCAGAAAAGAATGAT
GACCCAGACAGTCTTAAAATTCGTGTTAATCAAGATACTCGCTTAGATAATCGTGTATTA
GATTTACGTACTCCAGCGAATCAGGCTATTTTCAGATTAGAAGCTGGCGTTTGTAAACTC
TTTCGCGACATTCTGAGTAAAAAAGGTTTTGTTGAGATCCACACACCTAAAATCATTTCA
GCTGCGAGTGAAGGAGGAGCAAATGTTTTTACAGTTAGCTATTTTAAAGAATCAGCATAC
CTTGCACAATCACCACAATTGTACAAGCAAATGGCTATTGCAGCTGACTTTGATCGAGTT
TTTACGGTTGGAGCAGTTTTTCGAGCAGAAGACTCCAACACACATCGACATTTGACTGAA
TTCGTTGGCTTAGATTTAGAAATGGCCTTCAAATATCATTACCATGAAGTGCTGGACACA
ATTGCAAATACATTTACTGAAATGTTTAAAGGCTTGCGTGATAATTACGCTAATGAAATT
GCTGCCGTTGGAAATCAATATAATGTTGAACCATTCAAGTTTTTGGAACCTCCATTGAGA
TTAGAGTTTCATCAAGGAGTTCAAATGTTACGTGAAGCTGGCATAGAAACTGGTGATGAA
GAGGATTTGTCTACACCGAATGAAAAATTACTTGGTCGTTTGGTGAAAGCAAAATACGAT
ACAGATTTTTATATTTTGGATAAATTTCCATTGGCTATTCGACCATTTTATACAATGCCA
GATCCCAATAATCCTAAATATTCCAATTCATATGATATGTTTATGCGTGGCGAAGAAATT
TTGTCCGGTGCCCAGCGTATTCATGACCCTGATTATCTTGTTGAGCGTGCGAAACATCAC
GAAATCGATATTTCAAAAATTGCTGCATACATAGAAGCTTTTCGATTCGGTTGTCCACCA
CATGCAGGCGGTGGTATTGGCATGGAACGTGTCGTGATGCTCTATCTTGGATTGGATAAT
ATTAGAAAGACTTCAATGTTCCCTCGCGATCCAAAACGATTGACGCCTTAA
>g1122.t1 Gene=g1122 Length=576
MQLIKCKYLLRFSMKLLFSDAKAELSFNLCKKITKVYNSATMVTEESTINNNEGQSKNAA
KKLAAKAEKAAKRAEKTAAEKKQKENVEEAVGEDYSKDKYGQSKLIQSGEKHLERNFVPV
DQLSKAAEKGSKTVWVRGRIHTSRCKGKQCFIVLRQQSSTVQVLISVNDVISKQMVKFSG
SIARESIVDIHANIVKVEQKIESCTEQNLELHGLEIYVVSPAKPQLPLQIEDASRPEKND
DPDSLKIRVNQDTRLDNRVLDLRTPANQAIFRLEAGVCKLFRDILSKKGFVEIHTPKIIS
AASEGGANVFTVSYFKESAYLAQSPQLYKQMAIAADFDRVFTVGAVFRAEDSNTHRHLTE
FVGLDLEMAFKYHYHEVLDTIANTFTEMFKGLRDNYANEIAAVGNQYNVEPFKFLEPPLR
LEFHQGVQMLREAGIETGDEEDLSTPNEKLLGRLVKAKYDTDFYILDKFPLAIRPFYTMP
DPNNPKYSNSYDMFMRGEEILSGAQRIHDPDYLVERAKHHEIDISKIAAYIEAFRFGCPP
HAGGGIGMERVVMLYLGLDNIRKTSMFPRDPKRLTP
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 15 | g1122.t1 | CDD | cd04320 | AspRS_cyto_N | 133 | 232 | 3.26859E-44 |
| 16 | g1122.t1 | CDD | cd00776 | AsxRS_core | 248 | 572 | 4.46059E-177 |
| 14 | g1122.t1 | Coils | Coil | Coil | 57 | 87 | - |
| 13 | g1122.t1 | Gene3D | G3DSA:2.40.50.140 | - | 92 | 226 | 1.4E-36 |
| 12 | g1122.t1 | Gene3D | G3DSA:3.30.930.10 | Bira Bifunctional Protein; Domain 2 | 227 | 576 | 2.7E-119 |
| 4 | g1122.t1 | Hamap | MF_02075 | Aspartate–tRNA(Asp) ligase [aspS]. | 115 | 576 | 40.729733 |
| 3 | g1122.t1 | PANTHER | PTHR43450 | ASPARTYL-TRNA SYNTHETASE | 51 | 576 | 9.7E-233 |
| 8 | g1122.t1 | PRINTS | PR01042 | Aspartyl-tRNA synthetase signature | 321 | 333 | 7.4E-22 |
| 5 | g1122.t1 | PRINTS | PR01042 | Aspartyl-tRNA synthetase signature | 338 | 351 | 7.4E-22 |
| 7 | g1122.t1 | PRINTS | PR01042 | Aspartyl-tRNA synthetase signature | 491 | 507 | 7.4E-22 |
| 6 | g1122.t1 | PRINTS | PR01042 | Aspartyl-tRNA synthetase signature | 531 | 545 | 7.4E-22 |
| 1 | g1122.t1 | Pfam | PF01336 | OB-fold nucleic acid binding domain | 134 | 217 | 8.1E-7 |
| 2 | g1122.t1 | Pfam | PF00152 | tRNA synthetases class II (D, K and N) | 251 | 570 | 1.2E-78 |
| 18 | g1122.t1 | ProSiteProfiles | PS50862 | Aminoacyl-transfer RNA synthetases class-II family profile. | 271 | 576 | 21.89 |
| 10 | g1122.t1 | SUPERFAMILY | SSF50249 | Nucleic acid-binding proteins | 97 | 226 | 3.18E-27 |
| 9 | g1122.t1 | SUPERFAMILY | SSF55681 | Class II aaRS and biotin synthetases | 246 | 575 | 1.2E-92 |
| 11 | g1122.t1 | SignalP_GRAM_POSITIVE | SignalP-TM | SignalP-TM | 1 | 23 | - |
| 17 | g1122.t1 | TIGRFAM | TIGR00458 | aspS_nondisc: aspartate–tRNA(Asn) ligase | 128 | 576 | 5.4E-158 |
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:0004815 | aspartate-tRNA ligase activity | MF |
| GO:0005737 | cytoplasm | CC |
| GO:0003676 | nucleic acid binding | MF |
| GO:0006422 | aspartyl-tRNA aminoacylation | BP |
| GO:0000166 | nucleotide binding | MF |
| GO:0006418 | tRNA aminoacylation for protein translation | BP |
| GO:0004812 | aminoacyl-tRNA ligase activity | MF |
KEGG
Orthology
- This transcript has been annotated with K22503 (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.
