Gene loci information

Transcript annotation

  • This transcript has been annotated as Asparagine–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 g2530 g2530.t2 TSS g2530.t2 18488703 18488703
chr_3 g2530 g2530.t2 isoform g2530.t2 18488758 18489957
chr_3 g2530 g2530.t2 exon g2530.t2.exon1 18488758 18488795
chr_3 g2530 g2530.t2 exon g2530.t2.exon2 18488967 18489957
chr_3 g2530 g2530.t2 cds g2530.t2.CDS1 18489053 18489955
chr_3 g2530 g2530.t2 TTS g2530.t2 18490113 18490113

Sequences

>g2530.t2 Gene=g2530 Length=1029
ATGGCTACAGAAGCTCTAGAAAAACTGTCGCTAAGTGAGTGAACTATATACATCTGAGAA
ACGTGGTAGTGATGAGACGGGAGATGGAAGTGAGAAAAAACCATTTAAGACAATTTTGCA
GGCGATGAGACATGCAGGGAAGGAACCATTTCCAACTATTTATTCTGATGCAAAAGATGA
GAAATCTGAAAGTTTATATGAGCCAGCGGCTAAATCACAATTAAAGAAAGTAAAGAAACA
ATGGCTTACAGAGTTACAAAAAATGGCAGAAAAGTCAAAACGTGATGAAGAAGAAGCTGC
TCAAAGAGAGAAAAATTTAGAAGAAGCAAAGTTGATCAAAATTGCAGAAGATCCATCCTG
GCCTGTTGCTAAACAAATAAGAATTAATGAAGGATTGCAAAATCGTGGCATTCGAGTTAA
AATATATGGTTGGATTCATCGTCTTAGACGTCAAGGAAAGGGTTTGATGTTTGCAACATT
ACGTGATGGCTATGGCTATTTGCAATGTGTTTTAAGCGACTTGCTATGTCAAACTTATGA
AGGATTATTACTTTCAACTGAATCATCCGTGCTTTTCTTTGGCACTTTGAAAGAAGTTCC
TGAGGGAAAAACTGCACCAGATCAGCATGAATTGCATGTTGATTATTATGAAGTAGTAGG
TCATTCACCAGCTGGTGGTGCTGATAATTTATTGAACGAATTTGCAAATCCAGATGTAAT
GCTTGACAATCGACATATGATGATTCGTGGTGAAAACACATCAAAAATATTAAAAATGCG
CAGTGTAGTGACTCAAGCTTTTCGTAGTCACTTTTATGACAATGGTTACACAGAAGTTTG
TCCGCCAACTCTTGTTCAAACACAAGTCGAAGGAGGCTCAACACTCTTCAAATTTGATTA
TTTTGGTGAAGAGGCATATTTAACTCAAAGTTCACAATTATATCTTGAGACATGTATGCC
ATCACTTGGAGACGTTTTCTGCATTGCACAAAGTTATCGAGCAGAGCAATCTCGAACAAG
AAGACATTT

>g2530.t2 Gene=g2530 Length=301
MRHAGKEPFPTIYSDAKDEKSESLYEPAAKSQLKKVKKQWLTELQKMAEKSKRDEEEAAQ
REKNLEEAKLIKIAEDPSWPVAKQIRINEGLQNRGIRVKIYGWIHRLRRQGKGLMFATLR
DGYGYLQCVLSDLLCQTYEGLLLSTESSVLFFGTLKEVPEGKTAPDQHELHVDYYEVVGH
SPAGGADNLLNEFANPDVMLDNRHMMIRGENTSKILKMRSVVTQAFRSHFYDNGYTEVCP
PTLVQTQVEGGSTLFKFDYFGEEAYLTQSSQLYLETCMPSLGDVFCIAQSYRAEQSRTRR
H

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g2530.t2 CDD cd04323 AsnRS_cyto_like_N 97 180 4.39146E-38
11 g2530.t2 Coils Coil Coil 30 68 -
8 g2530.t2 Gene3D G3DSA:1.10.10.1430 - 1 47 4.6E-11
10 g2530.t2 Gene3D G3DSA:2.40.50.140 - 67 183 2.5E-26
9 g2530.t2 Gene3D G3DSA:3.30.930.10 Bira Bifunctional Protein; Domain 2 189 301 2.3E-34
7 g2530.t2 MobiDBLite mobidb-lite consensus disorder prediction 1 31 -
3 g2530.t2 PANTHER PTHR22594 ASPARTYL/LYSYL-TRNA SYNTHETASE 11 301 2.8E-122
4 g2530.t2 PANTHER PTHR22594:SF16 ASPARAGINE–TRNA LIGASE, CYTOPLASMIC 11 301 2.8E-122
1 g2530.t2 Pfam PF01336 OB-fold nucleic acid binding domain 98 177 3.5E-11
2 g2530.t2 Pfam PF00152 tRNA synthetases class II (D, K and N) 197 301 1.1E-34
6 g2530.t2 SUPERFAMILY SSF50249 Nucleic acid-binding proteins 63 182 6.12E-21
5 g2530.t2 SUPERFAMILY SSF55681 Class II aaRS and biotin synthetases 195 301 1.14E-28

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:0006418 tRNA aminoacylation for protein translation BP
GO:0000166 nucleotide binding MF
GO:0004812 aminoacyl-tRNA ligase activity MF
GO:0003676 nucleic acid binding 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. There were no conditions that were differentially expressed