Gene loci information

Transcript annotation

  • This transcript has been annotated as Adenylosuccinate synthetase.

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 g1978 g1978.t5 TSS g1978.t5 14170301 14170301
chr_3 g1978 g1978.t5 isoform g1978.t5 14170363 14172361
chr_3 g1978 g1978.t5 exon g1978.t5.exon1 14170363 14170572
chr_3 g1978 g1978.t5 cds g1978.t5.CDS1 14170363 14170572
chr_3 g1978 g1978.t5 exon g1978.t5.exon2 14171681 14171783
chr_3 g1978 g1978.t5 cds g1978.t5.CDS2 14171681 14171783
chr_3 g1978 g1978.t5 exon g1978.t5.exon3 14172083 14172361
chr_3 g1978 g1978.t5 cds g1978.t5.CDS3 14172083 14172360
chr_3 g1978 g1978.t5 TTS g1978.t5 14172618 14172618

Sequences

>g1978.t5 Gene=g1978 Length=592
ATGGCATCATCAACGCTAAATGGAGAAATCAATAATATAAACTACACAGATGATGTTATT
TCCCGTAATCGTTCTGGATCTTTAACTGGATCAGTTAGTAGTTATTCAAACAAGGTTTTA
GTAGTACTCGGTGCACAATGGGGAGATGAAGGGAAGGGAAAAGTCGTGGATATGCTTTCA
GTCAACGCTGACGTTGTTTGTAGATGTCAAGGCGGTAATAATGCAGGACATACAGTTGTC
GTTGATGGAAAGGAATTTGATTTTCATCTTTTGCCGAGTGGAATAATCAATGAAAAAAGC
ATATCTATAATTGGCAATGGAGTTGTTGTACATCTTCCTGGCTTATTTGAGGAATTGGCA
AAGAATGAGGCAAAAGGCTTATCAGATTGGCAAAATCGTTTGATTGTCTCTGACAGAGCT
CATTTGGTTTTTGATTTTCATCAACAAGTTGATGGATTGCAAGAGGCAGAAAAATGTAGA
GAAGGAAAATCACTTGGCACAACGAAAAAGGGCATTGGTCCAGCCTATTCTTCGAAAGCC
ACACGTAATGGCATTCGAGTTGGAGACTTGCTTGGTGATTTCAACACATTTA

>g1978.t5 Gene=g1978 Length=197
MASSTLNGEINNINYTDDVISRNRSGSLTGSVSSYSNKVLVVLGAQWGDEGKGKVVDMLS
VNADVVCRCQGGNNAGHTVVVDGKEFDFHLLPSGIINEKSISIIGNGVVVHLPGLFEELA
KNEAKGLSDWQNRLIVSDRAHLVFDFHQQVDGLQEAEKCREGKSLGTTKKGIGPAYSSKA
TRNGIRVGDLLGDFNTF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g1978.t5 Gene3D G3DSA:3.40.440.10 Adenylosuccinate Synthetase 37 195 9.1E-65
4 g1978.t5 Hamap MF_00011 Adenylosuccinate synthetase [purA]. 1 197 73.070854
2 g1978.t5 PANTHER PTHR11846 ADENYLOSUCCINATE SYNTHETASE 27 197 5.2E-83
3 g1978.t5 PANTHER PTHR11846:SF2 ADENYLOSUCCINATE SYNTHETASE ISOZYME 1 27 197 5.2E-83
1 g1978.t5 Pfam PF00709 Adenylosuccinate synthetase 41 192 1.1E-69
7 g1978.t5 ProSitePatterns PS01266 Adenylosuccinate synthetase GTP-binding site. 46 53 -
8 g1978.t5 ProSitePatterns PS00513 Adenylosuccinate synthetase active site. 171 182 -
6 g1978.t5 SMART SM00788 adenylsucc_synt 39 197 4.6E-26
5 g1978.t5 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 37 193 1.81E-61

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:0006164 purine nucleotide biosynthetic process BP
GO:0005525 GTP binding MF
GO:0004019 adenylosuccinate synthase 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