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.t5 TTS g1122.t5 8320377 8320377
chr_3 g1122 g1122.t5 isoform g1122.t5 8320744 8323150
chr_3 g1122 g1122.t5 exon g1122.t5.exon1 8320744 8321126
chr_3 g1122 g1122.t5 cds g1122.t5.CDS1 8320745 8321126
chr_3 g1122 g1122.t5 exon g1122.t5.exon2 8321189 8321830
chr_3 g1122 g1122.t5 cds g1122.t5.CDS2 8321189 8321830
chr_3 g1122 g1122.t5 exon g1122.t5.exon3 8321892 8322217
chr_3 g1122 g1122.t5 cds g1122.t5.CDS3 8321892 8322217
chr_3 g1122 g1122.t5 exon g1122.t5.exon4 8322282 8322376
chr_3 g1122 g1122.t5 cds g1122.t5.CDS4 8322282 8322374
chr_3 g1122 g1122.t5 exon g1122.t5.exon5 8322686 8323150
chr_3 g1122 g1122.t5 TSS g1122.t5 NA NA

Sequences

>g1122.t5 Gene=g1122 Length=1911
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
CTGAAATGTTTAAAGGCTTGCGTGATAATTACGCTAATGAAATTGCTGCCGTTGGAAATC
AATATAATGTTGAACCATTCAAGTTTTTGGAACCTCCATTGAGATTAGAGTTTCATCAAG
GAGTTCAAATGTTACGTGAAGCTGGCATAGAAACTGGTGATGAAGAGGATTTGTCTACAC
CGAATGAAAAATTACTTGGTCGTTTGGTGAAAGCAAAATACGATACAGATTTTTATATTT
TGGATAAATTTCCATTGGCTATTCGACCATTTTATACAATGCCAGATCCCAATAATCCTA
AATATTCCAATTCATATGATATGTTTATGCGTGGCGAAGAAATTTTGTCCGGTGCCCAGC
GTATTCATGACCCTGATTATCTTGTTGAGCGTGCGAAACATCACGAAATCG

>g1122.t5 Gene=g1122 Length=481
MVTEESTINNNEGQSKNAAKKLAAKAEKAAKRAEKTAAEKKQKENVEEAVGEDYSKDKYG
QSKLIQSGEKHLERNFVPVDQLSKAAEKGSKTVWVRGRIHTSRCKGKQCFIVLRQQSSTV
QVLISVNDVISKQMVKFSGSIARESIVDIHANIVKVEQKIESCTEQNLELHGLEIYVVSP
AKPQLPLQIEDASRPEKNDDPDSLKIRVNQDTRLDNRVLDLRTPANQAIFRLEAGVCKLF
RDILSKKGFVEIHTPKIISAASEGGANVFTVSYFKESAYLAQSPQLYKQMAIAADFDRVF
TVGAVFRAEDSNTHRHLTEFVGLDLEMAFKYHYHEVLDTIANTFTEMFKGLRDNYANEIA
AVGNQYNVEPFKFLEPPLRLEFHQGVQMLREAGIETGDEEDLSTPNEKLLGRLVKAKYDT
DFYILDKFPLAIRPFYTMPDPNNPKYSNSYDMFMRGEEILSGAQRIHDPDYLVERAKHHE
I

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g1122.t5 CDD cd04320 AspRS_cyto_N 92 191 2.60325E-44
13 g1122.t5 CDD cd00776 AsxRS_core 207 479 3.15213E-143
11 g1122.t5 Coils Coil Coil 16 46 -
10 g1122.t5 Gene3D G3DSA:2.40.50.140 - 51 185 9.8E-37
9 g1122.t5 Gene3D G3DSA:3.30.930.10 Bira Bifunctional Protein; Domain 2 186 481 2.9E-94
15 g1122.t5 MobiDBLite mobidb-lite consensus disorder prediction 1 53 -
16 g1122.t5 MobiDBLite mobidb-lite consensus disorder prediction 1 17 -
14 g1122.t5 MobiDBLite mobidb-lite consensus disorder prediction 21 53 -
3 g1122.t5 PANTHER PTHR43450 ASPARTYL-TRNA SYNTHETASE 11 481 1.7E-197
4 g1122.t5 PRINTS PR01042 Aspartyl-tRNA synthetase signature 280 292 1.7E-14
6 g1122.t5 PRINTS PR01042 Aspartyl-tRNA synthetase signature 297 310 1.7E-14
5 g1122.t5 PRINTS PR01042 Aspartyl-tRNA synthetase signature 450 466 1.7E-14
1 g1122.t5 Pfam PF01336 OB-fold nucleic acid binding domain 93 176 6.1E-7
2 g1122.t5 Pfam PF00152 tRNA synthetases class II (D, K and N) 210 479 8.1E-60
18 g1122.t5 ProSiteProfiles PS50862 Aminoacyl-transfer RNA synthetases class-II family profile. 230 481 14.45
8 g1122.t5 SUPERFAMILY SSF50249 Nucleic acid-binding proteins 56 185 2.33E-27
7 g1122.t5 SUPERFAMILY SSF55681 Class II aaRS and biotin synthetases 205 478 6.71E-71
17 g1122.t5 TIGRFAM TIGR00458 aspS_nondisc: aspartate–tRNA(Asn) ligase 87 479 8.3E-130

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

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.

Raw TPM values