Gene loci information

Transcript annotation

  • This transcript has been annotated as Aspartate–tRNA ligase, cytoplasmic.

Parent gene

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.t7 TTS g1122.t7 8320377 8320377
chr_3 g1122 g1122.t7 isoform g1122.t7 8321201 8323150
chr_3 g1122 g1122.t7 exon g1122.t7.exon1 8321201 8321830
chr_3 g1122 g1122.t7 cds g1122.t7.CDS1 8321203 8321830
chr_3 g1122 g1122.t7 exon g1122.t7.exon2 8321892 8322217
chr_3 g1122 g1122.t7 cds g1122.t7.CDS2 8321892 8322217
chr_3 g1122 g1122.t7 exon g1122.t7.exon3 8322282 8322376
chr_3 g1122 g1122.t7 cds g1122.t7.CDS3 8322282 8322374
chr_3 g1122 g1122.t7 exon g1122.t7.exon4 8322686 8323150
chr_3 g1122 g1122.t7 TSS g1122.t7 NA NA

Sequences

>g1122.t7 Gene=g1122 Length=1516
ATGCAGCTAATTAAATGCAAATATTTACTAAGATTTTCAATGAAATTATTATTTTCTGAT
GCAAAAGCTGAGTTGTCATTTAATCTTTGTAAAAAAATTGTTAGACTTCTACATGTTAAA
CTGATTCTTCAAGTGCAAACTCTTTATATTTTTAAAATTGGAGTTTTTTTGAATAATTAA
ATATCTTTGATGTACGGGATTATTATAAATAACATGTAATATTAAGTTGTTTTATATTGA
ATACATTAATTAATAATGTCATTTAAGATTTAAGTTATAATTTTTGAAAAACAAAATTAC
TCATAGACATTAATAGTTTCTTTTCGAAAACAACGATAACTCATTTTATTCGGCAATTTT
GCCAACTCGTGAGGAAATTTAGTTTATATAAAAATAGCAGAAAAATAAAACAAATAAGTT
AGTTACACACAATATTATTAAAGACAAAAGTCTATAATAGTGCAACTATGGTAACAGAAG
AATCAACAATAAACAACAATGAAGGCCAGTCAAAAAATGCAGCAAAAAAGCTAGCCGCAA
AAGCAGAAAAGGCAGCAAAGCGTGCCGAAAAAACTGCAGCAGAAAAGAAACAAAAAGAGA
ATGTTGAAGAAGCAGTTGGTGAAGATTATTCAAAAGATAAATATGGACAGTCTAAATTGA
TTCAATCAGGAGAAAAGCATCTGGAACGAAATTTCGTACCTGTAGATCAATTAAGTAAAG
CAGCAGAAAAAGGCTCAAAAACTGTGTGGGTTCGCGGACGTATACATACATCTCGATGTA
AAGGAAAACAATGTTTTATCGTATTACGTCAGCAATCAAGTACTGTGCAAGTGCTTATTT
CTGTTAATGACGTCATTTCGAAGCAAATGGTTAAATTCTCTGGATCAATTGCCCGTGAGA
GTATCGTTGATATTCATGCGAATATCGTCAAAGTTGAACAAAAAATAGAATCATGTACAG
AACAAAATTTGGAACTGCATGGTTTAGAAATTTACGTTGTTTCACCAGCAAAACCGCAAC
TGCCACTTCAAATTGAAGATGCTTCGCGTCCAGAAAAGAATGATGACCCAGACAGTCTTA
AAATTCGTGTTAATCAAGATACTCGCTTAGATAATCGTGTATTAGATTTACGTACTCCAG
CGAATCAGGCTATTTTCAGATTAGAAGCTGGCGTTTGTAAACTCTTTCGCGACATTCTGA
GTAAAAAAGGTTTTGTTGAGATCCACACACCTAAAATCATTTCAGCTGCGAGTGAAGGAG
GAGCAAATGTTTTTACAGTTAGCTATTTTAAAGAATCAGCATACCTTGCACAATCACCAC
AATTGTACAAGCAAATGGCTATTGCAGCTGACTTTGATCGAGTTTTTACGGTTGGAGCAG
TTTTTCGAGCAGAAGACTCCAACACACATCGACATTTGACTGAATTCGTTGGCTTAGATT
TAGAAATGGCCTTCAAATATCATTACCATGAAGTGCTGGACACAATTGCAAATACATTTA
CTGAAATGTTTAAAGG

>g1122.t7 Gene=g1122 Length=349
MVTEESTINNNEGQSKNAAKKLAAKAEKAAKRAEKTAAEKKQKENVEEAVGEDYSKDKYG
QSKLIQSGEKHLERNFVPVDQLSKAAEKGSKTVWVRGRIHTSRCKGKQCFIVLRQQSSTV
QVLISVNDVISKQMVKFSGSIARESIVDIHANIVKVEQKIESCTEQNLELHGLEIYVVSP
AKPQLPLQIEDASRPEKNDDPDSLKIRVNQDTRLDNRVLDLRTPANQAIFRLEAGVCKLF
RDILSKKGFVEIHTPKIISAASEGGANVFTVSYFKESAYLAQSPQLYKQMAIAADFDRVF
TVGAVFRAEDSNTHRHLTEFVGLDLEMAFKYHYHEVLDTIANTFTEMFK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g1122.t7 CDD cd04320 AspRS_cyto_N 92 191 1.07637E-43
10 g1122.t7 Coils Coil Coil 16 46 -
9 g1122.t7 Gene3D G3DSA:2.40.50.140 - 51 185 5.1E-37
8 g1122.t7 Gene3D G3DSA:3.30.930.10 Bira Bifunctional Protein; Domain 2 186 349 2.2E-55
13 g1122.t7 MobiDBLite mobidb-lite consensus disorder prediction 1 53 -
14 g1122.t7 MobiDBLite mobidb-lite consensus disorder prediction 1 17 -
12 g1122.t7 MobiDBLite mobidb-lite consensus disorder prediction 21 53 -
3 g1122.t7 PANTHER PTHR43450 ASPARTYL-TRNA SYNTHETASE 11 349 2.1E-127
4 g1122.t7 PRINTS PR01042 Aspartyl-tRNA synthetase signature 280 292 4.0E-7
5 g1122.t7 PRINTS PR01042 Aspartyl-tRNA synthetase signature 297 310 4.0E-7
1 g1122.t7 Pfam PF01336 OB-fold nucleic acid binding domain 93 176 3.6E-7
2 g1122.t7 Pfam PF00152 tRNA synthetases class II (D, K and N) 210 349 1.8E-40
15 g1122.t7 ProSiteProfiles PS50862 Aminoacyl-transfer RNA synthetases class-II family profile. 230 349 12.726
7 g1122.t7 SUPERFAMILY SSF50249 Nucleic acid-binding proteins 56 185 1.22E-27
6 g1122.t7 SUPERFAMILY SSF55681 Class II aaRS and biotin synthetases 205 348 2.38E-44

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 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.

Raw TPM values