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.t3 TTS g1122.t3 8320377 8320377
chr_3 g1122 g1122.t3 isoform g1122.t3 8320520 8322376
chr_3 g1122 g1122.t3 exon g1122.t3.exon1 8320520 8320683
chr_3 g1122 g1122.t3 cds g1122.t3.CDS1 8320520 8320683
chr_3 g1122 g1122.t3 exon g1122.t3.exon2 8320744 8321126
chr_3 g1122 g1122.t3 cds g1122.t3.CDS2 8320744 8321126
chr_3 g1122 g1122.t3 exon g1122.t3.exon3 8321189 8321830
chr_3 g1122 g1122.t3 cds g1122.t3.CDS3 8321189 8321830
chr_3 g1122 g1122.t3 exon g1122.t3.exon4 8321892 8322217
chr_3 g1122 g1122.t3 cds g1122.t3.CDS4 8321892 8322217
chr_3 g1122 g1122.t3 exon g1122.t3.exon5 8322282 8322376
chr_3 g1122 g1122.t3 cds g1122.t3.CDS5 8322282 8322374
chr_3 g1122 g1122.t3 TSS g1122.t3 8322807 8322807

Sequences

>g1122.t3 Gene=g1122 Length=1610
CTATGGTAACAGAAGAATCAACAATAAACAACAATGAAGGCCAGTCAAAAAATGCAGCAA
AAAAGCTAGCCGCAAAAGCAGAAAAGGCAGCAAAGCGTGCCGAAAAAACTGCAGCAGAAA
AGAAACAAAAAGAGAATGTTGAAGAAGCAGTTGGTGAAGATTATTCAAAAGATAAATATG
GACAGTCTAAATTGATTCAATCAGGAGAAAAGCATCTGGAACGAAATTTCGTACCTGTAG
ATCAATTAAGTAAAGCAGCAGAAAAAGGCTCAAAAACTGTGTGGGTTCGCGGACGTATAC
ATACATCTCGATGTAAAGGAAAACAATGTTTTATCGTATTACGTCAGCAATCAAGTACTG
TGCAAGTGCTTATTTCTGTTAATGACGTCATTTCGAAGCAAATGGTTAAATTCTCTGGAT
CAATTGCCCGTGAGAGTATCGTTGATATTCATGCGAATATCGTCAAAGTTGAACAAAAAA
TAGAATCATGTACAGAACAAAATTTGGAACTGCATGGTTTAGAAATTTACGTTGTTTCAC
CAGCAAAACCGCAACTGCCACTTCAAATTGAAGATGCTTCGCGTCCAGAAAAGAATGATG
ACCCAGACAGTCTTAAAATTCGTGTTAATCAAGATACTCGCTTAGATAATCGTGTATTAG
ATTTACGTACTCCAGCGAATCAGGCTATTTTCAGATTAGAAGCTGGCGTTTGTAAACTCT
TTCGCGACATTCTGAGTAAAAAAGGTTTTGTTGAGATCCACACACCTAAAATCATTTCAG
CTGCGAGTGAAGGAGGAGCAAATGTTTTTACAGTTAGCTATTTTAAAGAATCAGCATACC
TTGCACAATCACCACAATTGTACAAGCAAATGGCTATTGCAGCTGACTTTGATCGAGTTT
TTACGGTTGGAGCAGTTTTTCGAGCAGAAGACTCCAACACACATCGACATTTGACTGAAT
TCGTTGGCTTAGATTTAGAAATGGCCTTCAAATATCATTACCATGAAGTGCTGGACACAA
TTGCAAATACATTTACTGAAATGTTTAAAGGCTTGCGTGATAATTACGCTAATGAAATTG
CTGCCGTTGGAAATCAATATAATGTTGAACCATTCAAGTTTTTGGAACCTCCATTGAGAT
TAGAGTTTCATCAAGGAGTTCAAATGTTACGTGAAGCTGGCATAGAAACTGGTGATGAAG
AGGATTTGTCTACACCGAATGAAAAATTACTTGGTCGTTTGGTGAAAGCAAAATACGATA
CAGATTTTTATATTTTGGATAAATTTCCATTGGCTATTCGACCATTTTATACAATGCCAG
ATCCCAATAATCCTAAATATTCCAATTCATATGATATGTTTATGCGTGGCGAAGAAATTT
TGTCCGGTGCCCAGCGTATTCATGACCCTGATTATCTTGTTGAGCGTGCGAAACATCACG
AAATCGATATTTCAAAAATTGCTGCATACATAGAAGCTTTTCGATTCGGTTGTCCACCAC
ATGCAGGCGGTGGTATTGGCATGGAACGTGTCGTGATGCTCTATCTTGGATTGGATAATA
TTAGAAAGACTTCAATGTTCCCTCGCGATCCAAAACGATTGACGCCTTAA

>g1122.t3 Gene=g1122 Length=535
MVTEESTINNNEGQSKNAAKKLAAKAEKAAKRAEKTAAEKKQKENVEEAVGEDYSKDKYG
QSKLIQSGEKHLERNFVPVDQLSKAAEKGSKTVWVRGRIHTSRCKGKQCFIVLRQQSSTV
QVLISVNDVISKQMVKFSGSIARESIVDIHANIVKVEQKIESCTEQNLELHGLEIYVVSP
AKPQLPLQIEDASRPEKNDDPDSLKIRVNQDTRLDNRVLDLRTPANQAIFRLEAGVCKLF
RDILSKKGFVEIHTPKIISAASEGGANVFTVSYFKESAYLAQSPQLYKQMAIAADFDRVF
TVGAVFRAEDSNTHRHLTEFVGLDLEMAFKYHYHEVLDTIANTFTEMFKGLRDNYANEIA
AVGNQYNVEPFKFLEPPLRLEFHQGVQMLREAGIETGDEEDLSTPNEKLLGRLVKAKYDT
DFYILDKFPLAIRPFYTMPDPNNPKYSNSYDMFMRGEEILSGAQRIHDPDYLVERAKHHE
IDISKIAAYIEAFRFGCPPHAGGGIGMERVVMLYLGLDNIRKTSMFPRDPKRLTP

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g1122.t3 CDD cd04320 AspRS_cyto_N 92 191 2.38237E-44
15 g1122.t3 CDD cd00776 AsxRS_core 207 531 2.64532E-177
13 g1122.t3 Coils Coil Coil 16 46 -
12 g1122.t3 Gene3D G3DSA:2.40.50.140 - 51 185 1.2E-36
11 g1122.t3 Gene3D G3DSA:3.30.930.10 Bira Bifunctional Protein; Domain 2 186 535 2.1E-119
4 g1122.t3 Hamap MF_02075 Aspartate–tRNA(Asp) ligase [aspS]. 74 535 40.729733
17 g1122.t3 MobiDBLite mobidb-lite consensus disorder prediction 1 53 -
18 g1122.t3 MobiDBLite mobidb-lite consensus disorder prediction 1 17 -
16 g1122.t3 MobiDBLite mobidb-lite consensus disorder prediction 21 53 -
3 g1122.t3 PANTHER PTHR43450 ASPARTYL-TRNA SYNTHETASE 11 535 8.2E-233
6 g1122.t3 PRINTS PR01042 Aspartyl-tRNA synthetase signature 280 292 5.7E-22
8 g1122.t3 PRINTS PR01042 Aspartyl-tRNA synthetase signature 297 310 5.7E-22
7 g1122.t3 PRINTS PR01042 Aspartyl-tRNA synthetase signature 450 466 5.7E-22
5 g1122.t3 PRINTS PR01042 Aspartyl-tRNA synthetase signature 490 504 5.7E-22
1 g1122.t3 Pfam PF01336 OB-fold nucleic acid binding domain 93 176 7.2E-7
2 g1122.t3 Pfam PF00152 tRNA synthetases class II (D, K and N) 210 529 1.0E-78
20 g1122.t3 ProSiteProfiles PS50862 Aminoacyl-transfer RNA synthetases class-II family profile. 230 535 21.89
10 g1122.t3 SUPERFAMILY SSF50249 Nucleic acid-binding proteins 56 185 2.94E-27
9 g1122.t3 SUPERFAMILY SSF55681 Class II aaRS and biotin synthetases 205 534 9.75E-93
19 g1122.t3 TIGRFAM TIGR00458 aspS_nondisc: aspartate–tRNA(Asn) ligase 87 535 4.2E-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

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